2024-05-04 22:50:29, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001100681 6680 bp mRNA linear ROD 17-DEC-2023 DEFINITION Rattus norvegicus PBX homeobox 1 (Pbx1), transcript variant 2, mRNA. ACCESSION NM_001100681 XM_001072172 XM_001072218 XM_001072250 VERSION NM_001100681.2 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 6680) AUTHORS Jia D, Han J, Cai J, Huan Z, Wang Y and Ge X. TITLE Mesenchymal stem cells overexpressing PBX1 alleviates haemorrhagic shock-induced kidney damage by inhibiting NF-kappaB activation JOURNAL Biochim Biophys Acta Mol Cell Res 1871 (1), 119571 (2024) PUBMED 37673222 REMARK GeneRIF: Mesenchymal stem cells overexpressing PBX1 alleviates haemorrhagic shock-induced kidney damage by inhibiting NF-kappaB activation. REFERENCE 2 (bases 1 to 6680) AUTHORS Alankarage D, Szot JO, Pachter N, Slavotinek A, Selleri L, Shieh JT, Winlaw D, Giannoulatou E, Chapman G and Dunwoodie SL. TITLE Functional characterization of a novel PBX1 de novo missense variant identified in a patient with syndromic congenital heart disease JOURNAL Hum Mol Genet 29 (7), 1068-1082 (2020) PUBMED 31625560 REFERENCE 3 (bases 1 to 6680) AUTHORS Slavotinek A, Risolino M, Losa M, Cho MT, Monaghan KG, Schneidman-Duhovny D, Parisotto S, Herkert JC, Stegmann APA, Miller K, Shur N, Chui J, Muller E, DeBrosse S, Szot JO, Chapman G, Pachter NS, Winlaw DS, Mendelsohn BA, Dalton J, Sarafoglou K, Karachunski PI, Lewis JM, Pedro H, Dunwoodie SL, Selleri L and Shieh J. TITLE De novo, deleterious sequence variants that alter the transcriptional activity of the homeoprotein PBX1 are associated with intellectual disability and pleiotropic developmental defects JOURNAL Hum Mol Genet 26 (24), 4849-4860 (2017) PUBMED 29036646 REFERENCE 4 (bases 1 to 6680) AUTHORS Wang J, Qu D, An J, Yuan G and Liu Y. TITLE Integrated microarray analysis provided novel insights to the pathogenesis of glaucoma JOURNAL Mol Med Rep 16 (6), 8735-8746 (2017) PUBMED 28990066 REFERENCE 5 (bases 1 to 6680) AUTHORS Le Tanno P, Breton J, Bidart M, Satre V, Harbuz R, Ray PF, Bosson C, Dieterich K, Jaillard S, Odent S, Poke G, Beddow R, Digilio MC, Novelli A, Bernardini L, Pisanti MA, Mackenroth L, Hackmann K, Vogel I, Christensen R, Fokstuen S, Bena F, Amblard F, Devillard F, Vieville G, Apostolou A, Jouk PS, Guebre-Egziabher F, Sartelet H and Coutton C. TITLE PBX1 haploinsufficiency leads to syndromic congenital anomalies of the kidney and urinary tract (CAKUT) in humans JOURNAL J Med Genet 54 (7), 502-510 (2017) PUBMED 28270404 REFERENCE 6 (bases 1 to 6680) AUTHORS Ferretti E, Schulz H, Talarico D, Blasi F and Berthelsen J. TITLE The PBX-regulating protein PREP1 is present in different PBX-complexed forms in mouse JOURNAL Mech Dev 83 (1-2), 53-64 (1999) PUBMED 10381567 REFERENCE 7 (bases 1 to 6680) AUTHORS Piper DE, Batchelor AH, Chang CP, Cleary ML and Wolberger C. TITLE Structure of a HoxB1-Pbx1 heterodimer bound to DNA: role of the hexapeptide and a fourth homeodomain helix in complex formation JOURNAL Cell 96 (4), 587-597 (1999) PUBMED 10052460 REFERENCE 8 (bases 1 to 6680) AUTHORS Knoepfler PS, Calvo KR, Chen H, Antonarakis SE and Kamps MP. TITLE Meis1 and pKnox1 bind DNA cooperatively with Pbx1 utilizing an interaction surface disrupted in oncoprotein E2a-Pbx1 JOURNAL Proc Natl Acad Sci U S A 94 (26), 14553-14558 (1997) PUBMED 9405651 REFERENCE 9 (bases 1 to 6680) AUTHORS Chang CP, Jacobs Y, Nakamura T, Jenkins NA, Copeland NG and Cleary ML. TITLE Meis proteins are major in vivo DNA binding partners for wild-type but not chimeric Pbx proteins JOURNAL Mol Cell Biol 17 (10), 5679-5687 (1997) PUBMED 9315626 REFERENCE 10 (bases 1 to 6680) AUTHORS Shen WF, Rozenfeld S, Lawrence HJ and Largman C. TITLE The Abd-B-like Hox homeodomain proteins can be subdivided by the ability to form complexes with Pbx1a on a novel DNA target JOURNAL J Biol Chem 272 (13), 8198-8206 (1997) PUBMED 9079637 COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from JACYVU010000244.1, BC161983.1 and BC098847.1. On Aug 5, 2017 this sequence version replaced NM_001100681.1. Sequence Note: This RefSeq record was created from transcript and genomic sequence data to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on transcript alignments. 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 :: BC161983.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMD00132307, SAMEA5760396 [ECO:0000348] ##Evidence-Data-END## COMPLETENESS: complete on the 3' end. PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-135 JACYVU010000244.1 11308676-11308810 c 136-1973 BC161983.1 1-1838 1974-5415 JACYVU010000244.1 11033938-11037379 c 5416-6680 BC098847.1 1-1265 FEATURES Location/Qualifiers source 1..6680 /organism="Rattus norvegicus" /mol_type="mRNA" /strain="BN" /db_xref="taxon:10116" /chromosome="13" /map="13q24" gene 1..6680 /gene="Pbx1" /note="PBX homeobox 1" /db_xref="GeneID:304947" /db_xref="RGD:1308213" exon 1..585 /gene="Pbx1" /inference="alignment:Splign:2.1.0" misc_feature 311..313 /gene="Pbx1" /note="upstream in-frame stop codon" CDS 395..1438 /gene="Pbx1" /note="isoform b is encoded by transcript variant 2; pre-B-cell leukemia transcription factor 1; pre-B-cell leukemia homeobox 1" /codon_start=1 /product="pre-B-cell leukemia transcription factor 1 isoform b" /protein_id="NP_001094151.1" /db_xref="GeneID:304947" /db_xref="RGD:1308213" /translation="
MDEQPRLMHSHAGVGMAGHPGLSQHLQDGAGGTEGEGGRKQDIGDILQQIMTITDQSLDEAQARKHALNCHRMKPALFNVLCEIKEKTVLSIRGAQEEEPTDPQLMRLDNMLLAEGVAGPEKGGGSAAAAAAAAASGGAGSDNSVEHSDYRAKLSQIRQIYHTELEKYEQACNEFTTHVMNLLREQSRTRPISPKEIERMVSIIHRKFSSIQMQLKQSTCEAVMILRSRFLDARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQEEANIYAAKTAVTATNVSAHGSQANSPSTPNSAGGYPSPCYQPDRRIQ"
misc_feature 518..1090 /gene="Pbx1" /note="PBC domain; Region: PBC; pfam03792" /db_xref="CDD:427507" misc_feature 1094..1276 /gene="Pbx1" /note="Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner; Region: homeodomain; cd00086" /db_xref="CDD:238039" misc_feature order(1094..1108,1112..1114,1172..1174,1190..1192, 1229..1231,1235..1240,1247..1252,1256..1264,1268..1273) /gene="Pbx1" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:238039" misc_feature order(1100..1102,1109..1111,1238..1240,1247..1252, 1259..1261) /gene="Pbx1" /note="specific DNA base contacts [nucleotide binding]; other site" /db_xref="CDD:238039" exon 586..659 /gene="Pbx1" /inference="alignment:Splign:2.1.0" exon 660..904 /gene="Pbx1" /inference="alignment:Splign:2.1.0" exon 905..1095 /gene="Pbx1" /inference="alignment:Splign:2.1.0" exon 1096..1231 /gene="Pbx1" /inference="alignment:Splign:2.1.0" exon 1232..1391 /gene="Pbx1" /inference="alignment:Splign:2.1.0" exon 1392..1481 /gene="Pbx1" /inference="alignment:Splign:2.1.0" exon 1482..6655 /gene="Pbx1" /inference="alignment:Splign:2.1.0" ORIGIN
ggagcccatttctgccttgcacaggagatcggactgaaaaacccaaaggcagctctgatttcttttcgccaagtgggaaggtggtttatttttcttgcttttttggagtcaacacccttccccaccagcccttatccccaccctcaccccgcaaccccttcacgccccctccccctccccatcctcccaccatcctctaaagaggcaaagagattttttttttcccttttggtcttcttcttcttcttcttcttctttttttttttaaaccctggtccctgtttatcctgaaaaggatttgaagacagcttgaaggataaaaagcctcggtgcttcccaggcgccgagccgaggagccgaagaggaagagccggggctgccggagccttcagagatggacgagcagccgaggctgatgcattcccacgctggggtcgggatggccggacaccccggcctgtcccagcacttgcaggatggggccggagggaccgagggggagggcgggaggaagcaggacatcggggacattttacagcaaattatgaccatcacagaccagagtttggatgaagcgcaggccagaaaacatgctttaaactgccacagaatgaagcctgccttgtttaatgtgttgtgtgaaatcaaagaaaaaacagttttgagtattcggggagcccaagaagaggagcccacagacccccagctcatgcgactggacaacatgctgctagcagaaggggtggcggggcctgagaagggcggaggctcggcagcggcagcggcagcagcggcagcttctgggggtgcaggttcagacaactcagtggagcattccgattacagagccaaactctcacagatcagacaaatctaccacacagagctggagaagtatgaacaggcatgcaatgaattcaccacccacgtgatgaacctccttcgggagcaaagccggaccagacccatctctccgaaggagatcgagcggatggtcagcattattcaccgcaagttcagctccatccagatgcagctgaagcaaagcacgtgcgaggcagtcatgatcctgcgctcccggtttctggatgcgaggcggaagagacggaatttcaacaagcaagccacagaaattctgaatgaatatttctattcccatctcagcaacccttaccccagtgaggaagccaaagaggagttagccaagaagtgcggcatcacagtctcccaggtatcaaactggtttggaaataagcgaatccggtacaagaagaacataggtaaatttcaagaggaagccaatatttatgctgccaaaacggctgtcactgccaccaatgtgtcagcccatggaagccaagctaactcgccctccactcccaactcagcgggtggatacccttcgccatgttatcagccagacaggaggatacagtgacggactcgcagccagtcagatgtacagtccgcagggcatcagtgctaatggaggttggcaggatgctactaccccttcatcagtgacctcccctacagaaggccctggcagtgttcactctgatacctccaactgatctcccagcaatcgcatcccggctgaccctgtgccgcagttggggcaggggcaggagggagggtttctctcccaacgctgaagcggtcagactggaggtcgaagcaatcagcaaacacaataagagtctccttctcttctcttctttgggatgctatttcagccaatctggacacttctttatactctcttccctttttttctgggtagaagccacccttccctgcctccagctatcagactggttctgtcatcttccctggcccccgctctctgttatagactccctggttcctgccttctattatttcactgaaggattttttccccccacaattagagaaatttaaaaaggaaagacaaattacaaagaaacaataaacgcgtttgtatgttttcatgctggtggtttgaggagccaaatttacctcacgaggagccctcatccctacattgacaggcaatccttctgtttcccttgttactcttactacctcttagcaggaatacaccacactgccctactcattccaggccaccctatctccatttcccccttctttctgggaacaatcctgatttcttcctctcctttctggccccaggtgtttgctagggactgccatacctgggcttctaaaggtgccacatgtcccagtgtagctccatcaggttgagtcctaggcaggaagtctagcagcggaggacacaaggaatggcaaaggcaggactcctaccagctttctcatcctcttagaaacagttcttggtctcagaggcacagtctatggtgaccattcgaccattcaatttgcagaacctcaggcaagccaggtctaagagaggcgtcctgatgaggctgtttataaagagtgaaggatctcatcctgaaaggcttcactgtcccttcatagacatgtgcacacatacacaacatacaggtggacacatgcacaacctcacagctttgcttcgcaggatgctactaacctttcatcagtgacctcccctgtagaaggccctggcagtgtttactgatacctcccaaatggtctcccaacaatcaagtcctatacagacttacactagtgatcatagtactctatctggtgagcccgagagagaagcggtatgtggctggggcttttaggacccactaacatgtacttactacagtcagatgtacaggacttggttaacatgcaggtcaggattcaagtgtaaaccgtcttcattcctaccacctctgcagctctcagggagccacacacaggacttccaatgtctatgacagatttgaacgctttgtttgtgtttttattatgttatctttccaaaatattatagtcaaccatggtcttgattctggctttccctccagagaagagaacggtataggtatacggttaacttttactaattacttggaagacattgaatcatagagtaagggtgatgaattttttttttttttgttgtcgttgaaataatcacggtgatctatctatatgccaagggattgacagaaaatataagttgctagaaaggtagtcttgcttttgatatgaacttaaattctccagatgagtctgccagccataaagatggcagctttaccagtaggttaagtgacaagtggccagatatctttggagcctcatgcacttcctctgtaaaatgggaattggtatacttggctcaccaaggggcttgtaagacaccccccccaaaaaagctggttttgtttatatttaatctccaggtctgatggtcaggaaaagcaatgtctctatgccaaacatttcatgctaagtcagaacgatacatggttttcttcttctaatctctgcttgttatccagaccttggtgccatcgtagtaatgacagagtgctgtgtcagaggctttctgctctgatttggttttgctccatttgtcttcttaggatagagaggagattcaaagctagaggagtagaacctggttttattagtttcaacttgaatccagttatgaggctctgcaagtccttgtccctatcacaactcttctgcttcagggactcccaggaagaagtacaagagcttgagggctgagagacaagcccacagcaccacacacattccacaatactacagtgataaatgggaaacacgcttcatgtgtgttcggaggagtcaggcttgtatactggaaacctgaggggaccgagtatttgaagataatgcagaacagaattatttggcaaatgaaaatttgtctagctgacccgttactagaaagactgtcatcaaacctgagccatgcatagatctttgtccttgtggcaagaatatattgaaaccattaacagaagcatggctggatcacatcatgtaacatggagcaaattgtaagaattgctgaagggctctcttgaaaacaagaatgaccccagctgtggattgaacacatgaagggacatgagtggatcgtgctgcaatagtaccatcctcaaagcttgcttctctccaggcagtagctgcacagagagacccacccagcacttgattaggccgcctttagctccaacacatagccagtggtctgacatccatgctcactgctgcctccaacatggcagccaccagatctctgttgtcaagcaaggctagggaaaactggcagtccccagatagaattggaatgagtgtggcctttagaaactcagctccccaggatttcagatcaggtcaatgctatagactccccatttaaaaaacaaactgtgtcccagaatttcttcgtattctctaagtacgagtgtgagtgctctgtttccaacagcagcaattccctcctgagaaatggcgttgccgtgtataccttggtttaccatcacctcttcctgctggagtagaatggacttctgggtagctgttaagcccacagacaccttctctccatttcctcccctgtggtagtagtacttaattattaatattattatttttatttcggttgctttttcctcacacttatcttcgcttctttcttcctcctctttatttttttctgcccagaaaaacctgacttcgataccaaaaaaagataaaactacagaaactcaaattaaaaaaaaaaaatcttaggaaaaaaagaatgcaaaaaaaaaaaaaaaaactcaacaattctttcagctttattaacatttttccattgtttcttgcgacttgtgtctcgttctttgtagtattgatgatgaacatttgataatgaatgttcttgtatattcagataaagaaaaaaaaccaaaaaagcggtctgaatttaatagtgtttataataaaaaaaagttttaaaaatgaccctcatagcacgcaaaacaggaaggggaagcgtcccttctctctgtaacaatacacatcattcctgcaaatgttttttaacaccgaactacctatgttcctcatttctcccgtttttcttttttattttctcgcatttgtgaattagttcaagaatgctagaaaagtgtcaaggtgtgtacatccatttcttctttcatgatgtttaaaagtgaccgtaattcattttgtaaactaaaaaaggaaaaaaaaaaggaaaaaaaaaagaaaaaaaggaaaaaaaaaggttggaatagtgaacataataggttcaacctaacacattatgtttattaattttgacccagaaatgaattcttctctttattcctgctcttaaaaatacagaaaaagaaagttttgttttgtcttctttttggttttgtttatttgaggggggggtgctccttttccgctgttgggtttatgggtcttactaggtttgttccttacatatgtgtacagggtgatgtgaaaagagacagctaggagagaaggctgcttctcccctctgctttgctgcagtcaatgtcaaaaccaacgataaagcccacggccacatgcccctgctctcttgcatgccagggtgtgtggcactctgcagtccccgagataatgaggcagggacttccttccttaaatactcaccgagtctgtccaggggatttcttacattgaaaacaaaagcgcttgttgattctgaatgtcccaatcaagggctttctttctccctgactaacatcaacagtccacaggaagctcccaacaaggtgggatctctctccaggtagaactctacaggcagtactgccatggaagccgatgttacccagtacagtagatccgtgaagcccaccctgggcccatcttcttgggatccagattcccacattctggacgcagtgtggatgaagttaggagccagggtcacggctgggatttgaatactaagaagctgtcttttaatctgggtgcacttgtcgctcacctctggtgaggttaactctaaaatgccaggtgggcttcaccagaacgtttgtcacggtcttagggaaaaagaaggccatgtggttggacagacactcagtttcagacattgctcatgcagacactcaagtgttcagaaagcagacagaattcccgccagatgcatgaagaagggaagccacagtcccgggtctctgctgtaggaagcattccacctagagacagtttagctcttgtttctatgtcctgggagatgaaaggcagccttttcacgtcacctctgtgctctccagcctagctcaaagctttctggaaacttttattttatttttttttgtaaactttttctttccctttcattaaaataaaatatcgaatgttttccctctttcttcttccctctggggggtttcattttgaagtgtgttcctttggttgttggttttattccccccccccccgcattttcttttcttttcttttttctttattattgagagtataaacctgcaaagctcggttctactttggttttgaaagtttaagctttttctgcttctgtgcgagcacaggcctctgtcccctttgattccagctgaactttttgtgttctctaatgatactaacacgatgtaggttttacagtctcctaatttgtactggtaatgcagattccaaataaatagtttcttttgttgcaaaaaatataaaaaaaaaaaaaaaaaaaaaaaaaa
//
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]