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

2024-03-28 21:02:28, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       NM_022671               2360 bp    mRNA    linear   ROD 22-MAR-2023
DEFINITION  Rattus norvegicus one cut homeobox 1 (Onecut1), mRNA.
ACCESSION   NM_022671
VERSION     NM_022671.3
KEYWORDS    RefSeq; RefSeq Select.
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 2360)
  AUTHORS   Peng YC, Lv TH, Du ZK, Cun XN and Yang KM.
  TITLE     Liver Macrophages Stimulate the Expression of Hepatocyte Nuclear
            Factor-6 and Promote Hepatocyte Proliferation at the Early Stage of
            Liver Regeneration
  JOURNAL   Bull Exp Biol Med 170 (1), 40-45 (2020)
   PUBMED   33222081
  REMARK    GeneRIF: Liver Macrophages Stimulate the Expression of Hepatocyte
            Nuclear Factor-6 and Promote Hepatocyte Proliferation at the Early
            Stage of Liver Regeneration.
REFERENCE   2  (bases 1 to 2360)
  AUTHORS   Falix FA, Weeda VB, Labruyere WT, Poncy A, de Waart DR, Hakvoort
            TB, Lemaigre F, Gaemers IC, Aronson DC and Lamers WH.
  TITLE     Hepatic Notch2 deficiency leads to bile duct agenesis perinatally
            and secondary bile duct formation after weaning
  JOURNAL   Dev Biol 396 (2), 201-213 (2014)
   PUBMED   25446530
REFERENCE   3  (bases 1 to 2360)
  AUTHORS   Faure AJ, Schmidt D, Watt S, Schwalie PC, Wilson MD, Xu H, Ramsay
            RG, Odom DT and Flicek P.
  TITLE     Cohesin regulates tissue-specific expression by stabilizing highly
            occupied cis-regulatory modules
  JOURNAL   Genome Res 22 (11), 2163-2175 (2012)
   PUBMED   22780989
REFERENCE   4  (bases 1 to 2360)
  AUTHORS   Wang Z and Burke PA.
  TITLE     Hepatocyte nuclear factor-4alpha interacts with other hepatocyte
            nuclear factors in regulating transthyretin gene expression
  JOURNAL   FEBS J 277 (19), 4066-4075 (2010)
   PUBMED   20735474
REFERENCE   5  (bases 1 to 2360)
  AUTHORS   Margagliotti S, Clotman F, Pierreux CE, Beaudry JB, Jacquemin P,
            Rousseau GG and Lemaigre FP.
  TITLE     The Onecut transcription factors HNF-6/OC-1 and OC-2 regulate early
            liver expansion by controlling hepatoblast migration
  JOURNAL   Dev Biol 311 (2), 579-589 (2007)
   PUBMED   17936262
REFERENCE   6  (bases 1 to 2360)
  AUTHORS   Vanhorenbeeck V, Jacquemin P, Lemaigre FP and Rousseau GG.
  TITLE     OC-3, a novel mammalian member of the ONECUT class of transcription
            factors
  JOURNAL   Biochem Biophys Res Commun 292 (4), 848-854 (2002)
   PUBMED   11944891
REFERENCE   7  (bases 1 to 2360)
  AUTHORS   Jacquemin P, Durviaux SM, Jensen J, Godfraind C, Gradwohl G,
            Guillemot F, Madsen OD, Carmeliet P, Dewerchin M, Collen D,
            Rousseau GG and Lemaigre FP.
  TITLE     Transcription factor hepatocyte nuclear factor 6 regulates
            pancreatic endocrine cell differentiation and controls expression
            of the proendocrine gene ngn3
  JOURNAL   Mol Cell Biol 20 (12), 4445-4454 (2000)
   PUBMED   10825208
REFERENCE   8  (bases 1 to 2360)
  AUTHORS   Lannoy VJ, Burglin TR, Rousseau GG and Lemaigre FP.
  TITLE     Isoforms of hepatocyte nuclear factor-6 differ in DNA-binding
            properties, contain a bifunctional homeodomain, and define the new
            ONECUT class of homeodomain proteins
  JOURNAL   J Biol Chem 273 (22), 13552-13562 (1998)
   PUBMED   9593691
REFERENCE   9  (bases 1 to 2360)
  AUTHORS   Samadani U and Costa RH.
  TITLE     The transcriptional activator hepatocyte nuclear factor 6 regulates
            liver gene expression
  JOURNAL   Mol Cell Biol 16 (11), 6273-6284 (1996)
   PUBMED   8887657
REFERENCE   10 (bases 1 to 2360)
  AUTHORS   Lemaigre FP, Durviaux SM, Truong O, Lannoy VJ, Hsuan JJ and
            Rousseau GG.
  TITLE     Hepatocyte nuclear factor 6, a transcription factor that contains a
            novel type of homeodomain and a single cut domain
  JOURNAL   Proc Natl Acad Sci U S A 93 (18), 9460-9464 (1996)
   PUBMED   8790352
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from
            JACYVU010000199.1.
            
            On Nov 27, 2020 this sequence version replaced NM_022671.2.
            
            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##
            RNAseq introns :: single sample supports all introns SAMD00132263,
                              SAMD00132291 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1342              JACYVU010000199.1  8214556-8215897
            1343-2360           JACYVU010000199.1  8241088-8242105
FEATURES             Location/Qualifiers
     source          1..2360
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="8"
                     /map="8q24"
     gene            1..2360
                     /gene="Onecut1"
                     /gene_synonym="Hnf6"
                     /note="one cut homeobox 1"
                     /db_xref="GeneID:25231"
                     /db_xref="RGD:2811"
     exon            1..1342
                     /gene="Onecut1"
                     /gene_synonym="Hnf6"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    124..126
                     /gene="Onecut1"
                     /gene_synonym="Hnf6"
                     /note="upstream in-frame stop codon"
     CDS             238..1635
                     /gene="Onecut1"
                     /gene_synonym="Hnf6"
                     /note="one cut domain, family member 1; HNF-6"
                     /codon_start=1
                     /product="hepatocyte nuclear factor 6"
                     /protein_id="NP_073162.2"
                     /db_xref="GeneID:25231"
                     /db_xref="RGD:2811"
                     /translation="
MNAQLTMEAIGELHGVSHEPVPAPADLLGGSPHARSSVGHRGSHLPPAHPRSMGMASLLDGGSGGSDYHHHHRAPEHSLAGPLHPTMTMACETPPGMSMPTTYTTLTPLQPLPPISTVSDKFPHHHHHHHHHHHPHHHQRLAGNVSGSFTLMRDERGLASMNNLYTPYHKDVAGMGQSLSPLSGSGLGSIHNSQQGLPHYAHPGAAMPTDKMLTPNGFEAHHPAMLGRHGEQHLTPTSAGMVPINGLPPHHPHAHLNAQGHGQLLGTAREPNPSVTGAQVSNGSNSGQMEEINTKEVAQRITTELKRYSIPQAIFAQRVLCRSQGTLSDLLRNPKPWSKLKSGRETFRRMWKWLQEPEFQRMSALRLAACKRKEQEHGKDRGNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNARRRSLDKWQDEGSSNSGNSSSSSSTCTKA"
     misc_feature    280..489
                     /gene="Onecut1"
                     /gene_synonym="Hnf6"
                     /note="propagated from UniProtKB/Swiss-Prot (P70512.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    592..660
                     /gene="Onecut1"
                     /gene_synonym="Hnf6"
                     /note="propagated from UniProtKB/Swiss-Prot (P70512.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    1099..1323
                     /gene="Onecut1"
                     /gene_synonym="Hnf6"
                     /note="CUT domain; Region: CUT; pfam02376"
                     /db_xref="CDD:426745"
     misc_feature    1390..1557
                     /gene="Onecut1"
                     /gene_synonym="Hnf6"
                     /note="Homeodomain; Region: HOX; smart00389"
                     /db_xref="CDD:197696"
     misc_feature    order(1393..1407,1411..1413,1462..1464,1480..1482,
                     1519..1521,1525..1530,1537..1542,1546..1554)
                     /gene="Onecut1"
                     /gene_synonym="Hnf6"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    order(1399..1401,1408..1410,1528..1530,1537..1542,
                     1549..1551)
                     /gene="Onecut1"
                     /gene_synonym="Hnf6"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     misc_feature    1561..1632
                     /gene="Onecut1"
                     /gene_synonym="Hnf6"
                     /note="propagated from UniProtKB/Swiss-Prot (P70512.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     exon            1343..2360
                     /gene="Onecut1"
                     /gene_synonym="Hnf6"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
ggatcctttttggaaattaatattaaaaaagaaaaaaaagaaaagaaaaggcagaggggaaggtaggagcaagagagaaggcaagacacacacagagagagcgaaagacacagatccccacagtgagaggaagaaaggccacagtcgcaggcagccgatgtgaagactggactctgtgcgcccctcgccgcctctgcccggccacatcgatgttgcagcccgctcacccgcatcacgatgaacgcacagctgaccatggaggcgatcggcgagctgcacggggtgagccatgagccggtgcccgcccctgctgacctgctgggcgggagccctcacgcgcgcagctccgtggggcaccgcggcagccacctgcctcccgctcacccgcgttccatgggcatggcgtcgctgctggacggcggcagcggaggcagcgattaccaccaccaccaccgcgcccctgagcacagcttggctggccccctgcaccccaccatgaccatggcctgtgaaactcccccaggtatgagcatgcccaccacctacaccaccttaacccctctgcagccgctgccgcccatctccaccgtgtccgacaagttccctcaccaccatcaccaccaccatcaccaccaccacccacatcaccaccagcgcctggcgggcaacgtgagcggtagtttcacacttatgcgggatgagcgcgggctggcctccatgaataacctctataccccctaccacaaggacgtggctggcatgggccagagcctctcgcccctctctggctcgggtctgggcagcattcacaactcccagcaaggacttccccactatgctcatcccggcgcggctatgcccaccgacaagatgctcaccccaaatggctttgaagcccaccaccctgccatgctcggtcgccacggggagcagcacctcacgcccacctcggccggcatggtacccatcaacggccttcctccacaccatccccatgcccacctgaatgcccagggccacggacagctcctgggcacagcccgggagcccaacccttcggtgaccggcgcgcaggtcagcaatggaagtaattcagggcagatggaagagatcaataccaaagaggtggctcagcgtatcaccaccgagctcaaacgttacagcatcccacaggccatcttcgcgcagagggtgctctgccgttcccaggggaccctttcggacctgctgcgaaaccccaagccctggagcaaactcaagtccggtcgggagactttccggaggatgtggaagtggctgcaggagccggagttccagcgcatgtcggcgctccgcttagcagcctgcaaaaggaaagagcaagaacacgggaaggacagaggcaacacccccaaaaagcccaggctggtcttcacagacgtccaacgtcggactctacatgcaatattcaaggaaaataagcgtccgtccaaagaattacaaatcaccatttcccagcagctggggttggagctgagcactgtcagcaacttcttcatgaatgcgagaaggaggagtctggacaaatggcaggacgagggcagctccaattcaggcaactcttcgtcttcatcaagcacttgtaccaaagcatgaaggaagaaccacggactagaacctcggtggaaaagctttaaattaaataaaaaaaagtttttaaagaccaggacctcaagatagcaggtttatacttagaaatatttgaaggaaaacaagtggtatttatagtccaaagaaaccaaagactaaaaagctcacctgcattctgactttgttcagagacacatacttcagcggggcaagactcggcaagaaagatgatggagaaaacgtcggatctcgcgccttcaacccctgcacctcactgtgctcggctgctcagtggctctaagcacagtaatgtttgagccatcgagtggacatcttttaagatcagacgttcttatctgttccaccacactgcaaaggtgtgtagtgtctcaatatcacgtgtgagtatgtgtgtgcatgcgtgcacacgtaaacacacagcaacaccagtgtttagggactcaggcacggctggtcttcaggaagggttgcaccatatgacatgaccaagctggtgtgggatttctaagttcattggatctgagatgtgagttttctcatctaagcctagcgtttgaacctgccaggcccacaacctaaatgcagattcaaacccagcaaagaaaatttgaatggcacctaaaccagtacgctctctttgtttgttaagaaatgttcagatatttttaaaaaaaaaatgaaacaagagtccatccattaaaaaaaaaaaa
//

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]