GGRNA ver.2 Home | Help | Advanced search    Previous release (v1)

2024-11-01 08:13:18, GGRNA.v2 : RefSeq release 226 (Sep, 2024)

LOCUS       NM_001395151            2894 bp    mRNA    linear   ROD 28-MAR-2024
DEFINITION  Rattus norvegicus protection of telomeres 1 (Pot1), mRNA.
ACCESSION   NM_001395151 XM_006236161
VERSION     NM_001395151.1
KEYWORDS    RefSeq.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 2894)
  AUTHORS   Yin,H., Hardikar,S., Lindstroem,S., Hsu,L., Anderson,K.E.,
            Banbury,B.L., Berndt,S.I., Chan,A.T., Giovanucci,E.L.,
            Harrison,T.A., Joshi,A.D., Nan,H., Potter,J.D., Sakoda,L.C.,
            Slattery,M.L., Schoen,R.E., White,E., Peters,U. and Newcomb,P.A.
  TITLE     Telomere Maintenance Variants and Survival after Colorectal Cancer:
            Smoking- and Sex-Specific Associations
  JOURNAL   Cancer Epidemiol Biomarkers Prev 29 (9), 1817-1824 (2020)
   PUBMED   32586834
REFERENCE   2  (bases 1 to 2894)
  AUTHORS   Ishigaki,K., Akiyama,M., Kanai,M., Takahashi,A., Kawakami,E.,
            Sugishita,H., Sakaue,S., Matoba,N., Low,S.K., Okada,Y., Terao,C.,
            Amariuta,T., Gazal,S., Kochi,Y., Horikoshi,M., Suzuki,K., Ito,K.,
            Koyama,S., Ozaki,K., Niida,S., Sakata,Y., Sakata,Y., Kohno,T.,
            Shiraishi,K., Momozawa,Y., Hirata,M., Matsuda,K., Ikeda,M.,
            Iwata,N., Ikegawa,S., Kou,I., Tanaka,T., Nakagawa,H., Suzuki,A.,
            Hirota,T., Tamari,M., Chayama,K., Miki,D., Mori,M., Nagayama,S.,
            Daigo,Y., Miki,Y., Katagiri,T., Ogawa,O., Obara,W., Ito,H.,
            Yoshida,T., Imoto,I., Takahashi,T., Tanikawa,C., Suzuki,T.,
            Sinozaki,N., Minami,S., Yamaguchi,H., Asai,S., Takahashi,Y.,
            Yamaji,K., Takahashi,K., Fujioka,T., Takata,R., Yanai,H.,
            Masumoto,A., Koretsune,Y., Kutsumi,H., Higashiyama,M., Murayama,S.,
            Minegishi,N., Suzuki,K., Tanno,K., Shimizu,A., Yamaji,T.,
            Iwasaki,M., Sawada,N., Uemura,H., Tanaka,K., Naito,M., Sasaki,M.,
            Wakai,K., Tsugane,S., Yamamoto,M., Yamamoto,K., Murakami,Y.,
            Nakamura,Y., Raychaudhuri,S., Inazawa,J., Yamauchi,T., Kadowaki,T.,
            Kubo,M. and Kamatani,Y.
  TITLE     Large-scale genome-wide association study in a Japanese population
            identifies novel susceptibility loci across different diseases
  JOURNAL   Nat Genet 52 (7), 669-679 (2020)
   PUBMED   32514122
REFERENCE   3  (bases 1 to 2894)
  AUTHORS   Yu,Y., Tan,R., Ren,Q., Gao,B., Sheng,Z., Zhang,J., Zheng,X.,
            Jiang,Y., Lan,L. and Mao,Z.
  TITLE     POT1 inhibits the efficiency but promotes the fidelity of
            nonhomologous end joining at non-telomeric DNA regions
  JOURNAL   Aging (Albany NY) 9 (12), 2529-2543 (2017)
   PUBMED   29227966
REFERENCE   4  (bases 1 to 2894)
  AUTHORS   Poojary,S.S., Mishra,G., Singh,T.D., Gupta,S., Shrivastav,B.R. and
            Tiwari,P.K.
  TITLE     Telomere length variation and expression analysis of shelterin
            complex genes during gallbladder carcinogenesis
  JOURNAL   J Cancer Res Ther 13 (2), 235-239 (2017)
   PUBMED   28643740
REFERENCE   5  (bases 1 to 2894)
  AUTHORS   Karami,S., Han,Y., Pande,M., Cheng,I., Rudd,J., Pierce,B.L.,
            Nutter,E.L., Schumacher,F.R., Kote-Jarai,Z., Lindstrom,S.,
            Witte,J.S., Fang,S., Han,J., Kraft,P., Hunter,D.J., Song,F.,
            Hung,R.J., McKay,J., Gruber,S.B., Chanock,S.J., Risch,A., Shen,H.,
            Haiman,C.A., Boardman,L., Ulrich,C.M., Casey,G., Peters,U., Amin Al
            Olama,A., Berchuck,A., Berndt,S.I., Bezieau,S., Brennan,P.,
            Brenner,H., Brinton,L., Caporaso,N., Chan,A.T., Chang-Claude,J.,
            Christiani,D.C., Cunningham,J.M., Easton,D., Eeles,R.A., Eisen,T.,
            Gala,M., Gallinger,S.J., Gayther,S.A., Goode,E.L., Gronberg,H.,
            Henderson,B.E., Houlston,R., Joshi,A.D., Kury,S., Landi,M.T., Le
            Marchand,L., Muir,K., Newcomb,P.A., Permuth-Wey,J., Pharoah,P.,
            Phelan,C., Potter,J.D., Ramus,S.J., Risch,H., Schildkraut,J.,
            Slattery,M.L., Song,H., Wentzensen,N., White,E., Wiklund,F.,
            Zanke,B.W., Sellers,T.A., Zheng,W., Chatterjee,N., Amos,C.I. and
            Doherty,J.A.
  CONSRTM   GECCO and the GAME-ON Network: CORECT, DRIVE, ELLIPSE, FOCI, and
            TRICL
  TITLE     Telomere structure and maintenance gene variants and risk of five
            cancer types
  JOURNAL   Int J Cancer 139 (12), 2655-2670 (2016)
   PUBMED   27459707
REFERENCE   6  (bases 1 to 2894)
  AUTHORS   Kelleher,C., Kurth,I. and Lingner,J.
  TITLE     Human protection of telomeres 1 (POT1) is a negative regulator of
            telomerase activity in vitro
  JOURNAL   Mol Cell Biol 25 (2), 808-818 (2005)
   PUBMED   15632080
REFERENCE   7  (bases 1 to 2894)
  AUTHORS   Liu,D., O'Connor,M.S., Qin,J. and Songyang,Z.
  TITLE     Telosome, a mammalian telomere-associated complex formed by
            multiple telomeric proteins
  JOURNAL   J Biol Chem 279 (49), 51338-51342 (2004)
   PUBMED   15383534
REFERENCE   8  (bases 1 to 2894)
  AUTHORS   Liu,D., Safari,A., O'Connor,M.S., Chan,D.W., Laegeler,A., Qin,J.
            and Songyang,Z.
  TITLE     PTOP interacts with POT1 and regulates its localization to
            telomeres
  JOURNAL   Nat Cell Biol 6 (7), 673-680 (2004)
   PUBMED   15181449
REFERENCE   9  (bases 1 to 2894)
  AUTHORS   Loayza,D. and De Lange,T.
  TITLE     POT1 as a terminal transducer of TRF1 telomere length control
  JOURNAL   Nature 423 (6943), 1013-1018 (2003)
   PUBMED   12768206
REFERENCE   10 (bases 1 to 2894)
  AUTHORS   Colgin,L.M., Baran,K., Baumann,P., Cech,T.R. and Reddel,R.R.
  TITLE     Human POT1 facilitates telomere elongation by telomerase
  JOURNAL   Curr Biol 13 (11), 942-946 (2003)
   PUBMED   12781132
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000004.1.
            
            On Jun 4, 2021 this sequence version replaced XM_006236161.3.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26643292.16887.1,
                                           SRR26643288.18142.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760386 [ECO:0006172]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-43                JAXUCZ010000004.1  55228501-55228543   c
            44-109              JAXUCZ010000004.1  55225282-55225347   c
            110-331             JAXUCZ010000004.1  55220914-55221135   c
            332-378             JAXUCZ010000004.1  55217874-55217920   c
            379-493             JAXUCZ010000004.1  55212898-55213012   c
            494-624             JAXUCZ010000004.1  55199614-55199744   c
            625-915             JAXUCZ010000004.1  55196339-55196629   c
            916-1071            JAXUCZ010000004.1  55192964-55193119   c
            1072-1241           JAXUCZ010000004.1  55187448-55187617   c
            1242-1327           JAXUCZ010000004.1  55184334-55184419   c
            1328-1390           JAXUCZ010000004.1  55183125-55183187   c
            1391-1547           JAXUCZ010000004.1  55180469-55180625   c
            1548-1753           JAXUCZ010000004.1  55178709-55178914   c
            1754-1889           JAXUCZ010000004.1  55177899-55178034   c
            1890-1978           JAXUCZ010000004.1  55175863-55175951   c
            1979-2070           JAXUCZ010000004.1  55174201-55174292   c
            2071-2176           JAXUCZ010000004.1  55172488-55172593   c
            2177-2894           JAXUCZ010000004.1  55170821-55171538   c
FEATURES             Location/Qualifiers
     source          1..2894
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="4"
                     /map="4q22"
     gene            1..2894
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /note="protection of telomeres 1"
                     /db_xref="GeneID:500054"
                     /db_xref="RGD:1562696"
     exon            1..43
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            44..109
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            110..331
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            332..378
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    340..342
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /note="upstream in-frame stop codon"
     CDS             370..2286
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /note="protection of telomeres 1A; protection of telomeres
                     1 homolog"
                     /codon_start=1
                     /product="protection of telomeres protein 1"
                     /protein_id="NP_001382080.1"
                     /db_xref="GeneID:500054"
                     /db_xref="RGD:1562696"
                     /translation="
MSLVPVTPYTYTPLNLLKEGAVANVYGVVKFFKPPYLSKGTDYCSVVTIVDPTNVKLTCMLFSGNYEALPIIYKVGDIVRFHRLKIQVYKNELQGINSSGFASLTFEGTLGTPVTARTSSKVFSFTSQDQKMVEALRVWASKHIAASSSLVQLCDAQPLQYYDLTCQLLGKAEVDGTAFLLKVWDGTRTMFPSWRVSIQNLTFEGDLSHIQRLQSLVIDILVYDNHVQVAKSLKIGSFIRIYSLHTKLQSVDSETSKSLLRLEFHLHGGTSYGRGIRVLPDESSCVDQLKKDLECADSAVTQPSNGICQSKNEDSFVLSSSASGSVSLYEEERCQQVSSTILTDHQHLEKTPLCAVLKQKAPQQYRVRAKLRSYLPRRLPQSVKLICPQCHSLQEVPHEDSLDKLLQDAATKAPDIRLQGTSLYESKIWTTEGQGGRQVAVHFVKKDGVLPLSSECLILIEGGRLCEVSKLSSKFHSVIPVRSGPEDLELLDISAPFLIQGKLHHYGCKQCSSLKPIQNLNSLLNKGPWIPSSVAKVLGIVPLQYVFVMTFTLDDGTGVLDTYLKDSENFFKIPASEVLTDDNLQRNLEAIMDMICPPGIKVDAYPWLECLIKSYNVTIGTEQRICYQIFDTTVAEDV"
     misc_feature    400..792
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /note="Telomeric single stranded DNA binding POT1/CDC13;
                     Region: Telo_bind; smart00976"
                     /db_xref="CDD:214949"
     misc_feature    order(439..441,601..603,607..609,613..615,679..681)
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /note="generic binding surface II [active]"
                     /db_xref="CDD:239943"
     misc_feature    order(460..471,475..477,511..513,577..579,583..585,
                     589..594,694..696)
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /note="OB1/OB2 interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:239943"
     misc_feature    order(466..468,475..477,481..483,493..495,511..513,
                     547..549,553..555,559..561,628..630,634..636,649..651)
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /note="ssDNA binding site [nucleotide binding]; other
                     site"
                     /db_xref="CDD:239943"
     misc_feature    850..1206
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /note="A subfamily of OB folds similar to the second OB
                     fold (OB2) of human protection of telomeres 1 protein
                     (hPOT1). POT1 proteins bind to the single-stranded (ss)
                     3-prime ends of the telomere. hPOT1 binds specifically to
                     ss telomeric DNA repeats ending with...; Region:
                     hPOT1_OB2; cd04498"
                     /db_xref="CDD:239944"
     misc_feature    order(850..852,1036..1041,1096..1098,1102..1104,
                     1168..1173,1180..1185,1189..1191)
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /note="ssDNA binding [nucleotide binding]; other site"
                     /db_xref="CDD:239944"
     misc_feature    order(1087..1089,1093..1095,1177..1179,1186..1188,
                     1198..1200)
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /note="binding surface II [active]"
                     /db_xref="CDD:239944"
     misc_feature    1411..2271
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /note="Protection Of Telomeres Protein 1 (POT1) C-terminal
                     region; Region: Pot1C; cd20374"
                     /db_xref="CDD:380669"
     misc_feature    order(1411..1413,1474..1476,1495..1497,1726..1728,
                     1807..1809,1813..1815,1978..1980,1987..1989,2098..2100,
                     2143..2145,2155..2157,2251..2253)
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /note="disease mutation sites; other site"
                     /db_xref="CDD:380669"
     misc_feature    order(1495..1497,1501..1512,1519..1521,1540..1542,
                     1546..1548,1552..1557,1561..1563,1642..1644,1648..1650,
                     1654..1662,1678..1680,1696..1698,1723..1731,1768..1770,
                     1777..1782,1789..1794,2011..2019,2065..2067,2101..2106,
                     2113..2115,2122..2124,2206..2208,2212..2214,2218..2220,
                     2239..2241,2245..2247,2251..2253)
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /note="heterodimer interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:380669"
     exon            379..493
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            494..624
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            625..915
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            916..1071
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            1072..1241
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            1242..1327
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            1328..1390
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            1391..1547
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            1548..1753
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            1754..1889
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            1890..1978
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            1979..2070
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            2071..2176
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
     exon            2177..2894
                     /gene="Pot1"
                     /gene_synonym="Pot1a"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
tgggcgcgtcaatgcagaccttagttgtccgcgggtcttgctgggaaaactcagttgttcttaatgccttgcggaagtaaaacagctgttttgaagattagactttgagaggctgtaggcctaacgatgactgtctgcgtgttggagagactaagaacctcggtcctgttcagccaatctgtttgatgcttcagcagtccctacctggtgctgaaaccctacagtatttctgcagagcgtttggaagactctgaagctgctgtctgatgtcagtaaatgacagcagcagcagcggcagcgggattgacgcactcactagcaggaatgaaaggtttgtgataaatctatgagaggatttcccatcaaacaatgtctttggttccggtaactccctatacatatacacccctgaatctacttaaggaaggtgcagttgccaatgtctatggtgttgtgaaattctttaagcctccatatctcagcaaaggaactgattattgctcagttgtaacaattgtggacccaacaaatgtgaagttaacgtgcatgctctttagtggaaactatgaagcccttccgatcatttacaaagttggagacattgttcgcttccataggctgaagatccaagtatataaaaatgagcttcagggaatcaacagctctgggttcgcgtctttgacatttgaaggaacattagggacacctgtcacagcacgtacttcaagcaaagtttttagcttcacttctcaggaccaaaaaatggtagaagctttgcgagtttgggcatccaagcacattgcagcttcttcaagtttagtgcagctgtgtgacgctcagcccctgcaatattatgacctgacctgtcagcttctgggtaaagcagaagtggatggaacagcctttcttctaaaggtatgggacggaaccaggactatgtttccctcttggagagtctccatacaaaatcttacctttgaaggtgacttgagtcacattcagcggctacagagtctggtgatagacattctagtctatgacaatcatgttcaagtggcaaaatccctcaagattggaagctttattcgaatctatagcctccataccaaacttcagtctgttgattcagaaaccagcaagtcattgttaaggctggagtttcatctccatggagggaccagttatggtcgggggattagggttttgccagatgaaagctcgtgtgtggatcagctgaaaaaagatttagaatgtgcagattcggcagtcactcaaccctcaaatggtatctgtcaatcaaaaaatgaggatagctttgtactttcaagctctgcatcaggctcagtatccctgtatgaggaagaacgatgtcagcaagtctcttctacaatactcacagatcaccagcacttagagaaaactccattgtgtgccgttttgaagcaaaaggctccgcagcaatatcgggtccgtgccaagctgaggtcgtatttgcccaggagacttccccagtctgttaaactgatctgtccgcagtgccattcactacaagaagttccacatgaggacagtttggataaacttttgcaagatgctgcaactaaagcgccagacatcaggctgcaaggtacatctttgtatgaatcaaagatctggaccaccgaaggccagggaggacggcaggtcgctgttcactttgtgaagaaggatggtgttctcccactttcaagtgaatgtctaattttgatagaaggaggaagactctgtgaagtgtccaagctgtccagcaagttccacagtgtgatccctgtgaggtccggccctgaggatctggagctcctcgacatttcagccccattcctcatacagggaaagctgcatcactatggatgtaaacagtgttcaagcttgaaacctatacaaaacctaaattcccttcttaataaaggaccatggattccttcctccgtggcaaaagtcctgggcattgtgcctctgcagtatgtgtttgttatgacgttcactctggatgatggaacaggagtgttggacacttacctcaaggattctgaaaactttttcaagatcccagcatctgaagtcctcactgatgacaaccttcagaggaatctggaagcgatcatggatatgatatgccctcctggaataaaagttgatgcatacccgtggcttgagtgcctcatcaagtcctacaatgtcaccattggaacagaacaacgaatttgctaccagatttttgacaccacggttgcagaagatgtctagtgctgccattcagtgcagtgtgtatggattttacaattttagaaaaggtcatgactctgagattctcagaagacacttggctattgtcaaaagtattgtatccattttcactgtagttcttttgtacagaaaactattttgttatttatgccatcttgtgaacatgtcagaaatcccttgctgctcatcatgtcccagggagtataaaatgagacagcactggttggggagaatgcccactctcatttttaaaacactggtagcaacttctccttctgtgctgtttgattctttttttttttttttttttgtacagaagaatctgcttagcaacttctgaaagaattctccctctacttccacacatgagtatcaggttaactgagtgcttgttgaacagatgccgtctcaccaagcggggatatactaaaaggagggtttcctttcagaagacatggctttgtttgggtgctcttgatgcccatttcaggataaatgtatctctttgaaccaaatagtatgcgtgactttctgcttctctctggaatactagaagctatttaatttcataccaactaataaagtgataggatttatattttcatgaa
//

by @meso_cacase at DBCLS
This page is licensed under a Creative Commons Attribution 4.0 International License (CC BY 4.0).

If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596. [Full Text]