2024-04-25 03:42:43, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001388512 2107 bp mRNA linear ROD 23-AUG-2023 DEFINITION Rattus norvegicus hypoxia inducible factor 3 subunit alpha (Hif3a), transcript variant 2, mRNA. ACCESSION NM_001388512 VERSION NM_001388512.1 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 2107) AUTHORS Xu Y, Hu T, Ding H, Yuan Y and Chen R. TITLE miR-485-5p alleviates obstructive sleep apnea syndrome with hypertension by inhibiting PI3K/AKT signaling pathway via downregulating HIF3A expression JOURNAL Sleep Breath 27 (1), 109-119 (2023) PUBMED 35132534 REMARK GeneRIF: miR-485-5p alleviates obstructive sleep apnea syndrome with hypertension by inhibiting PI3K/AKT signaling pathway via downregulating HIF3A expression. REFERENCE 2 (bases 1 to 2107) AUTHORS Yang M, Yan X, Yuan FZ, Ye J, Du MZ, Mao ZM, Xu BB, Chen YR, Song YF, Fan BS and Yu JK. TITLE MicroRNA-210-3p Promotes Chondrogenic Differentiation and Inhibits Adipogenic Differentiation Correlated with HIF-3alpha Signalling in Bone Marrow Mesenchymal Stem Cells JOURNAL Biomed Res Int 2021, 6699910 (2021) PUBMED 33937412 REMARK GeneRIF: MicroRNA-210-3p Promotes Chondrogenic Differentiation and Inhibits Adipogenic Differentiation Correlated with HIF-3alpha Signalling in Bone Marrow Mesenchymal Stem Cells. Publication Status: Online-Only REFERENCE 3 (bases 1 to 2107) AUTHORS Coelho NR, Tomkiewicz C, Correia MJ, Goncalves-Dias C, Barouki R, Pereira SA, Coumoul X and Monteiro EC. TITLE First evidence of aryl hydrocarbon receptor as a druggable target in hypertension induced by chronic intermittent hypoxia JOURNAL Pharmacol Res 159, 104869 (2020) PUBMED 32416216 REFERENCE 4 (bases 1 to 2107) AUTHORS Drevytska T, Gonchar E, Okhai I, Lynnyk O, Mankovska I, Klionsky D and Dosenko V. TITLE The protective effect of Hif3a RNA interference and HIF-prolyl hydroxylase inhibition on cardiomyocytes under anoxia-reoxygenation JOURNAL Life Sci 202, 131-139 (2018) PUBMED 29660430 REMARK GeneRIF: Hif3a RNA interference and HIF-prolyl hydroxylase inhibition protect cardiomyocytes against anoxia-reoxygenation injury via the HIF signaling pathway REFERENCE 5 (bases 1 to 2107) AUTHORS Cuomo F, Coppola A, Botti C, Maione C, Forte A, Scisciola L, Liguori G, Caiafa I, Ursini MV, Galderisi U, Cipollaro M, Altucci L and Cobellis G. TITLE Pro-inflammatory cytokines activate hypoxia-inducible factor 3alpha via epigenetic changes in mesenchymal stromal/stem cells JOURNAL Sci Rep 8 (1), 5842 (2018) PUBMED 29643458 REMARK GeneRIF: Study in human mesenchymal stromal/stem cells revealed robust hypermethylation of histone H3 across HIF3A locus driven by pro-inflammatory cytokines. Experiments in a murine model of arteriotomy highlighted the activation of Hif3alpha expression in infiltrated inflammatory cells, suggesting a new role for Hif3alpha in inflammation in vivo. Erratum:[Sci Rep. 2020 Apr 17;10(1):6776. PMID: 32303693] Publication Status: Online-Only REFERENCE 6 (bases 1 to 2107) AUTHORS Li QF and Dai AG. TITLE Differential expression of three hypoxia-inducible factor-alpha subunits in pulmonary arteries of rat with hypoxia-induced hypertension JOURNAL Acta Biochim Biophys Sin (Shanghai) 37 (10), 665-672 (2005) PUBMED 16215633 REMARK GeneRIF: HIF-1alpha, HIF-2alpha and HIF-3alpha may not only confer different target genes, but also play key pathogenetic roles in hypoxic-induced pulmonary hypertension. REFERENCE 7 (bases 1 to 2107) AUTHORS Heidbreder M, Frohlich F, Johren O, Dendorfer A, Qadri F and Dominiak P. TITLE Hypoxia rapidly activates HIF-3alpha mRNA expression JOURNAL FASEB J 17 (11), 1541-1543 (2003) PUBMED 12824304 REMARK GeneRIF: Hypoxia rapidly activates HIF-3alpha mRNA expression REFERENCE 8 (bases 1 to 2107) AUTHORS Hara S, Hamada J, Kobayashi C, Kondo Y and Imura N. TITLE Expression and characterization of hypoxia-inducible factor (HIF)-3alpha in human kidney: suppression of HIF-mediated gene expression by HIF-3alpha JOURNAL Biochem Biophys Res Commun 287 (4), 808-813 (2001) PUBMED 11573933 REFERENCE 9 (bases 1 to 2107) AUTHORS Kietzmann T, Cornesse Y, Brechtel K, Modaressi S and Jungermann K. TITLE Perivenous expression of the mRNA of the three hypoxia-inducible factor alpha-subunits, HIF1alpha, HIF2alpha and HIF3alpha, in rat liver JOURNAL Biochem J 354 (Pt 3), 531-537 (2001) PUBMED 11237857 REFERENCE 10 (bases 1 to 2107) AUTHORS Gu YZ, Moran SM, Hogenesch JB, Wartman L and Bradfield CA. TITLE Molecular characterization and chromosomal localization of a third alpha-class hypoxia inducible factor subunit, HIF3alpha JOURNAL Gene Expr 7 (3), 205-213 (1998) PUBMED 9840812 COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from JACYVU010000033.1. Sequence Note: The RefSeq transcript and protein were derived from genomic sequence to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on 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## RNAseq introns :: single sample supports all introns SAMN16676789 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## inferred exon combination :: based on alignments, homology RefSeq Select criteria :: based on conservation, expression, longest protein ##RefSeq-Attributes-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-65 JACYVU010000033.1 1626648-1626712 c 66-256 JACYVU010000033.1 1620642-1620832 c 257-402 JACYVU010000033.1 1619128-1619273 c 403-487 JACYVU010000033.1 1616751-1616835 c 488-600 JACYVU010000033.1 1615871-1615983 c 601-809 JACYVU010000033.1 1615303-1615511 c 810-916 JACYVU010000033.1 1613116-1613222 c 917-1064 JACYVU010000033.1 1612714-1612861 c 1065-1177 JACYVU010000033.1 1609228-1609340 c 1178-1368 JACYVU010000033.1 1608245-1608435 c 1369-1470 JACYVU010000033.1 1606035-1606136 c 1471-1742 JACYVU010000033.1 1604036-1604307 c 1743-1854 JACYVU010000033.1 1602553-1602664 c 1855-1936 JACYVU010000033.1 1600954-1601035 c 1937-2107 JACYVU010000033.1 1599425-1599595 c FEATURES Location/Qualifiers source 1..2107 /organism="Rattus norvegicus" /mol_type="mRNA" /strain="BN" /db_xref="taxon:10116" /chromosome="1" /map="1q21" gene 1..2107 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /note="hypoxia inducible factor 3 subunit alpha" /db_xref="GeneID:64345" /db_xref="RGD:70332" exon 1..65 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" CDS 40..2034 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /note="isoform 2 is encoded by transcript variant 2; HIF3-alpha; HIF-3-alpha; HIF3-alpha-1; hypoxia inducible factor 3, alpha subunit; hypoxia inducible factor 3a; Inhibitory PAS (Per/Arnt/Sim) domain protein; hypoxia-inducible factor 3-alpha" /codon_start=1 /product="hypoxia-inducible factor 3-alpha isoform 2" /protein_id="NP_001375441.1" /db_xref="GeneID:64345" /db_xref="RGD:70332" /translation="
MALGLQRVRSSTELRKEKSRDAARSRRSQETEVLYQLAHTLPFARGVSAHLDKASIMRLTISYLRMHRLCAAGEWNQVGKEGEPLDACYLKALEGFVMVLTAEGDMAYLSENVSKHLGLSQLELIGHSIFDFIHPCDQEELQDALTPRPSLSKKKSEAATGRHFSLRMKSTLTSRGRTLNLKAATWKVLHCSGHMRAYKPPAQTSPAGSPRSEPPLQCLVLICEAIPHPASLEPPLGRGAFLSRHSLDMKFTYCDERIAEVAGYSPDDLIGCSAYEYIHALDSDAVSRSIHTLLSKGQAVTGQYRFLARTGGYLWTQTQATVVSGGRGPQSESIICVHFLISRVEENGVVLSLEQTEQHTRRPPQLGTSSKKGIPGNSLDPPAPRILAFLHPPALSEASLAADPRRFCSPDLRRLMAPILDGPPTAATPSTPQAARRPQSPLPADLPDQLAVGLENAHRLSTARKNKTMETDLDIAQDPDTLDLEMLAPYISMDDDFQLNSSEQLPKVHRRPPRTARRPRARSFHGLSPPIPEATLLPRWGSDPRLNCSSSSKGDPPTAPLTPRTRKRALAQSSEDKGLELLETKPPKRSPRLEPGSVLLPPLSLSFLLQGRQLPGNQPDPRAPLVDSHEPLGLAPSLLSLYQHEETIQPRNHFLPAAGLAQTH"
misc_feature 73..261 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /note="basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in hypoxia-inducible factor 3-alpha (HIF3a) and similar proteins; Region: bHLH-PAS_HIF3a_PASD7; cd19729" /db_xref="CDD:381572" misc_feature order(82..87,91..99,106..111,115..120,193..198) /gene="Hif3a" /gene_synonym="Ipas; Mop7" /note="putative DNA binding site [nucleotide binding]; other site" /db_xref="CDD:381572" misc_feature order(124..129,133..138,145..150,157..162,193..201, 208..213,220..222,229..234,241..243) /gene="Hif3a" /gene_synonym="Ipas; Mop7" /note="putative dimer interface [polypeptide binding]; other site" /db_xref="CDD:381572" misc_feature 307..474 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /note="PAS domain; Region: PAS; smart00091" /db_xref="CDD:214512" misc_feature 790..1053 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /note="PAS fold; Region: PAS_3; pfam08447" /db_xref="CDD:430001" misc_feature order(799..801,811..813,829..831,868..879,955..957, 970..972) /gene="Hif3a" /gene_synonym="Ipas; Mop7" /note="putative active site [active]" /db_xref="CDD:238075" misc_feature order(859..861,871..873,895..897,904..909,991..993, 997..999) /gene="Hif3a" /gene_synonym="Ipas; Mop7" /note="heme pocket [chemical binding]; other site" /db_xref="CDD:238075" misc_feature <1117..1938 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /note="large tegument protein UL36; Provisional; Region: PHA03247" /db_xref="CDD:223021" misc_feature 1468..1557 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /note="Hypoxia-inducible factor-1; Region: HIF-1; pfam11413" /db_xref="CDD:431874" exon 66..256 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" exon 257..402 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" exon 403..487 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" exon 488..600 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" exon 601..809 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" exon 810..916 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" exon 917..1064 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" exon 1065..1177 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" exon 1178..1368 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" exon 1369..1470 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" exon 1471..1742 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" exon 1743..1854 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" exon 1855..1936 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" exon 1937..2107 /gene="Hif3a" /gene_synonym="Ipas; Mop7" /inference="alignment:Splign:2.1.0" ORIGIN
gctgggcatcgagggctctggaaccgcgaagggcgagccatggcgttggggctgcagcgcgtgaggtcgagcaccgagctgcggaaggagaagtcgcgggatgcggcccgcagcaggcgcagccaggagacggaggtgctgtaccaactggcgcacaccctgccctttgcgcgcggcgtcagcgcgcacctggacaaggcctccatcatgcgcctcacaatcagctacttgcgcatgcaccgcctctgcgctgcaggggagtggaaccaggtgggaaaagagggagaaccactggacgcctgctacctgaaggccctggagggtttcgtcatggtgctcaccgctgagggagacatggcttacctgtcggaaaatgtcagcaagcacctgggcctcagtcagctggagctcattggacacagtatctttgattttatccatccctgtgaccaagaggaactccaggatgccctgaccccgagaccaagcctgtcaaagaagaagtcagaagcagcaacaggacgccacttttccctgcgaatgaagagcacactcaccagcagggggcgcacgctgaacctcaaagcggccacctggaaggtgctgcactgctcaggacatatgagggcctacaagccccctgcacagacttcccccgccgggagccctcgctccgagcctcccctgcaatgcctggtgcttatctgtgaagccatcccccacccagccagtctggagcccccactgggccgaggggcctttctcagtcgccacagcctggacatgaagttcacatactgcgacgagaggattgcagaagttgctggctacagccccgatgacctgattggctgttctgcctatgaatacatccacgctttggactctgatgcagtcagcaggagcatccacactttgctgagcaagggccaggcagtaacagggcagtatcgcttcctggcccggactggaggctatctgtggactcagactcaggctacagtggtgtcaggggggcggggcccccagtcggaaagtatcatctgcgtccacttcctgatcagccgtgtagaagagaacggagtggtgctgtccctggaacaaacggagcaacatactcgcagaccccctcagctgggtacctcctcgaagaagggtatcccaggcaacagtctagaccctcccgctccacggatcctggccttcctgcaccctccagccctgagtgaggcctccctggctgctgaccctcgccgtttttgtagcccagacctgcgccgcctcatggcacccatcctggatggacctcccacagccgctacccccagcaccccgcaagctgcacggagaccccaaagtcctcttccggctgatctcccagatcagttggctgtgggcttggagaatgcacacagactctccactgcccggaaaaacaagaccatggagacagatctagatatagctcaggaccctgacactctggacttggagatgttggctccgtacatctccatggatgatgacttccagctcaactccagcgagcaattgcccaaagtccaccgcagacctcccaggacggcccgcaggcctcgtgctcggagcttccatggcctgtcgcctcccatccctgaggccaccctgctgccccgctgggggagtgatccacgactgaactgttccagctcctccaagggggatccccccacagcccccctgacgcctagaactcggaagagggccttggcccagagctcagaggacaaagggttggagctgctggaaacgaagccccccaagcggtccccaagactagaacctggaagtgtcctgctgcctccgctcagcctgagtttccttctgcaaggtcgacaacttccagggaaccagccggatcccagagccccactcgtggattcgcatgagcccttgggcctagctccctcgctgctctctctctaccagcatgaggaaactatccagcccaggaaccacttcctcccagcagcaggcttggcccagacacactgagtcagccttcctctcagccctcttcttctaccccagaaaggactcagccgcactccacaccagcagcctacac
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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.
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