2024-05-03 10:21:15, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001396754 8301 bp mRNA linear VRT 24-SEP-2023 DEFINITION Gallus gallus nuclear factor I B (NFIB), transcript variant 7, mRNA. ACCESSION NM_001396754 XM_040655447 VERSION NM_001396754.1 KEYWORDS RefSeq. SOURCE Gallus gallus (chicken) ORGANISM Gallus gallus Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae; Galloanserae; Galliformes; Phasianidae; Phasianinae; Gallus. REFERENCE 1 (bases 1 to 8301) AUTHORS Tang H, Finn RD and Thomas PD. TITLE TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations JOURNAL Bioinformatics 35 (3), 518-520 (2019) PUBMED 30032202 REFERENCE 2 (bases 1 to 8301) AUTHORS Burge S, Kelly E, Lonsdale D, Mutowo-Muellenet P, McAnulla C, Mitchell A, Sangrador-Vegas A, Yong SY, Mulder N and Hunter S. TITLE Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation JOURNAL Database (Oxford) 2012, bar068 (2012) PUBMED 22301074 REMARK Publication Status: Online-Only REFERENCE 3 (bases 1 to 8301) AUTHORS Rupp RA, Kruse U, Multhaup G, Gobel U, Beyreuther K and Sippel AE. TITLE Chicken NFI/TGGCA proteins are encoded by at least three independent genes: NFI-A, NFI-B and NFI-C with homologues in mammalian genomes JOURNAL Nucleic Acids Res 18 (9), 2607-2616 (1990) PUBMED 2339052 COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from JAENSK010000092.1. On Oct 25, 2021 this sequence version replaced XM_040655447.1. ##Evidence-Data-START## Transcript exon combination :: SRR13267659.151364.1, SRR12888497.24738.1 [ECO:0000332] RNAseq introns :: mixed sample support SAMEA103992290, SAMEA103992323 [ECO:0006172] ##Evidence-Data-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-147 JAENSK010000092.1 1254988-1255134 c 148-679 JAENSK010000092.1 1254051-1254582 c 680-733 JAENSK010000092.1 1161692-1161745 c 734-802 JAENSK010000092.1 1150052-1150120 c 803-923 JAENSK010000092.1 1148166-1148286 c 924-1042 JAENSK010000092.1 1146326-1146444 c 1043-1174 JAENSK010000092.1 1129970-1130101 c 1175-1359 JAENSK010000092.1 1127392-1127576 c 1360-8301 JAENSK010000092.1 1086180-1093121 c FEATURES Location/Qualifiers source 1..8301 /organism="Gallus gallus" /mol_type="mRNA" /db_xref="taxon:9031" /chromosome="Z" /map="Z" gene 1..8301 /gene="NFIB" /note="nuclear factor I B" /db_xref="CGNC:49703" /db_xref="GeneID:396209" exon 1..147 /gene="NFIB" /inference="alignment:Splign:2.1.0" misc_feature 127..129 /gene="NFIB" /note="upstream in-frame stop codon" CDS 145..1377 /gene="NFIB" /note="isoform 7 is encoded by transcript variant 7; nuclear factor 1 B-type; CCAAT-box binding transcription factor; CTF; NF1-B; NFI-B; NF-I/B; nuclear factor 1/B; TGGCA-binding protein" /codon_start=1 /product="nuclear factor 1 B-type isoform 7" /protein_id="NP_001383683.1" /db_xref="CGNC:49703" /db_xref="GeneID:396209" /translation="
MDEFHPFIEALLPHVRAIAYTWFNLQARKRKYFKKHEKRMSKDEERAVKDELLSEKPEIKQKWASRLLAKLRKDIRQEFREDFVLTVTGKKHPCCVLSNPDQKGKIRRIDCLRQADKVWRLDLVMVILFKGIPLESTDGERLMKSPHCTNPALCVQPHHITVSVKELDLFLAYYVQEQDSGQPGSPSHNDPAKNPPVYLEDSFVKSGVFNVSELVRVSRTPITQGTGVNFPIGELPSQPYYHDMNSGINLQRSLSSPPSSKRPKTISIDENMEPSPTGDFYPSPNSPAAGSRTWHERDQDMSSPTMKKPEKPLFSPTSPQDSSPRLSTFPQHHHPGIPGVAQSVISTRTPPSPSPLPFPAQAILPPAPSSYFSHPTIRYPPHLNPQDTLKNYVPSYDPSSPQTSQSWYLG"
misc_feature 148..258 /gene="NFIB" /note="Nuclear factor I protein pre-N-terminus; Region: NfI_DNAbd_pre-N; pfam10524" /db_xref="CDD:371114" misc_feature 322..636 /gene="NFIB" /note="N-terminal Mad Homology 1 (MH1) domain; Region: MH1; cl00055" /db_xref="CDD:412134" misc_feature 742..>1359 /gene="NFIB" /note="CTF/NF-I family transcription modulation region; Region: CTF_NFI; pfam00859" /db_xref="CDD:425913" exon 148..679 /gene="NFIB" /inference="alignment:Splign:2.1.0" exon 680..733 /gene="NFIB" /inference="alignment:Splign:2.1.0" exon 734..802 /gene="NFIB" /inference="alignment:Splign:2.1.0" exon 803..923 /gene="NFIB" /inference="alignment:Splign:2.1.0" exon 924..1042 /gene="NFIB" /inference="alignment:Splign:2.1.0" exon 1043..1174 /gene="NFIB" /inference="alignment:Splign:2.1.0" exon 1175..1359 /gene="NFIB" /inference="alignment:Splign:2.1.0" exon 1360..8301 /gene="NFIB" /inference="alignment:Splign:2.1.0" ORIGIN
gggaactgtgtggcattacactgagcatgtatatgctttgtgtttctgtgccacagagaagagaaatgaactgtggcattcacttcagcgttctgaacatttctgctcagattttttagaactgtatagtgtcctctttgtgcaatggatgaatttcacccgttcattgaggcacttcttccgcatgtccgtgcaattgcctatacttggttcaacctccaggctcgaaaacgcaagtacttcaaaaaacatgagaaacgaatgtcgaaggatgaagaaagagcagtcaaggatgagctactaagcgaaaagcccgaaattaaacagaagtgggcatccaggctcctcgccaagctgcgcaaagatattcgccaagagttccgggaggattttgtgctcacggtgactgggaagaagcacccgtgctgtgtattgtccaatcctgaccagaagggtaagattaggaggatcgactgcctgagacaggctgacaaagtctggcgtctggatctagtcatggtgatcctgttcaaaggcatccccttggaaagtacggatggagagcggctcatgaaatccccacattgcacaaatccagcactttgcgtccagccacaccacataacagtatcagtcaaggagcttgatttgtttttggcatactacgtgcaggagcaagattctggacaaccaggaagtccaagccacaatgatcctgccaagaatccaccagtgtatcttgaggacagttttgtaaaatctggagtgttcaacgtgtcagaacttgtgagagtgtccagaacacctataacccaaggaactggagtgaacttcccaattggagaacttccgagccagccgtactaccatgatatgaattctggtataaatctgcagaggtctttatcctctccaccaagcagcaaaagacccaaaactatctccatagatgagaatatggagccaagcccgacaggagacttttatccttctccaaattcaccagctgcgggaagtcggacatggcatgaaagagatcaagatatgtcttctcctacaatgaagaaacctgaaaagcctttgtttagtcctacttctccccaggattcttcaccaagactgagcactttcccccagcatcaccacccaggaatcccaggagttgcacagagtgtcatctcaactagaactccaccttcaccttcaccattgccatttccagcacaagctattctccctcctgccccgtctagttacttctctcatccaacgatcagatatcctccccacctgaatcctcaggatactctgaagaattatgtaccttcttacgacccgtccagtccacagactagccagtcctggtacctgggctagcttggttccttttcaagtatcaaacaggacaccgatcctgccgacaaatgtcccaaattatggtttgaacataattggagagcctttccttcaagcagaaagcagcaactgagggaaaaaataaaaagaaaaattaggaaaaagaaaaaaaaaaaaaagaaggaagacgggatgggagaagaaactgaagaacgaagaataaatagaccagcaattgcagcacttacaatcactaattcccttatggtcgaaactgaaatgacatacaaagggtcgatgatatttcactgatgggtagaacgcagctcctgctaagtagcctttgttatatgaagtccgctgggaaatagatgttctgtctctgacaatatattttaactgactttctagatgccttaatatttgcatgataagctagttttattggtttagtattcttgttgtttacgcatgggatcactattcctggttatctcacaaaacaaaggctaggcagcagcagcagatttgcaggaggacaagggctgtaagccagccgttttctcaacactctgatttctaaatgtttaaaaaagaaaaaagaaaaaaaaaagctctgtagcctttagttatcagtatggatttattaaactttggcccttgactcagccttttctagtgtgttacccagcttgaaattttcaatcagaatgaacacacacgctctatgtaagagatgcctctatgtaggtgaaagtgttatcttttcatgcaacagtaaaaaaaaaaaaaagaaaaaaaagaaaaaaaaaccatacaaactacaaactttttacccactaaagaaacacttagagaggcaagtgcaatttaaaaaagttgtatcaaaggggtcatcattataagtccttcagcccttggactctaaattgaggggattaaaaaaaggaattaaaatttactttgaacaaatttatttttcccctcagtttttgagggcattaaaaggcattacatcaagacaaatcatgtccttgagaaaaataaatcaatgaaaacacagcacttatgttggtttagctgctgcctccacaaaggggtagaatttatttatttaaagttactggttgcatcaagaacccatagggtttatatttttctgtataatctgcatcatagagacaaagagataggcaaatccatgccaaaagggcaaagcttactgtttacaaactggtaataccaggatggggataagatttatttaaataatgcactctctaagtctaattacagggtgctgaaaacttgcatggtgctttcagaagttagccttgttcaacagatttcacatattgacagaaatataatgtgcatgggcagacattttgcctctgtgtctcttaaaaagtaattaattaaaatactctttccagtaatcccgatttgcacgaaaatataatgtccacattacgtgccttgccttgaaatctaaaaaatgaaaaaaaaaacaacaaaaaaatacaaaaaatccacaaaaacaaacaaaaaaaaattgacatcactacacttgttttgctgcatttattatcatttaaatctttaccatttttatgacaaaatattttgtactccagatgggaaaaaaagtgtgacatcatggattttttagacagttatatctttatctcacatttataaagcatatcatggctgtgtataattgccgcttaagaattgtaatcgaccagcaatattttcagtattttggtgtttttttctattaacctttcatgtttttcatcttccaattaatattgggggggggaggggggggagggggttcaaatttatacgaattatgcaataccaagttttgcctatgtaggtagtgcttttagctgtattggttattataggtaagtacacagatttaaaagaaaaaaaaaaaagaataatgtatgctttgtttttgttttgtttcttggtttttttgttttttgttttttgttttttttttttttaattgaccaaagtgggtactgctatttttgcagtgtgatgaggtccttttatgtactgagagatggacggggatttttttttttatacatatatatatattctggggtgggtggggatgatttttaacactttacagtgtagctgtgaagcagtgcacccttagccaggcaagggctgcaaagcgactgttctgcctactgtgacaaactttcaaatcggttccctcttttaacttcccacctggggtgcaagctgaaatcatttctggatttaaaaaataaataatgaattctgttggaggcagacttgacttgaggaaattgttttactacggatttctttagagagagagagagagggaaagggagaaagagagcgatagaaacaggagagagaggcagccggagggagaaggaggtcaggacacacagcgagacaaagccttcccactctggtgaatacactacatctgaaagtgttcgtgttagaaatgtttttaacttagaaagatgggtgctttgtctaggaaatgcacgtagatggccaaaatcttagctggcataactccactggcttcagttgacttcagagctgttcctgcagagaatttgcctcctttagtctgcgtggctggtaaatattttcttttcccctacaacaaaactattttttgaagtttgtcaactcacagtgtctgagttccaatcttcggtctgctcataccacatcagaggtttgcaaagtcttctcatacagcaggtcagatggagagctctgggctgtagcaggaaaggagcttcagaatgggtggaattagagtatggtgtaaacaaaagtgcatttccagtaaaaccagaccttacagattagtcatgatctcctgttgctggagacctcttatgccctggggatgcatcttatctatagctcagtgtagggagaacaccttcatgcgcaagcaaaggatggaaaagtctcgaaatagggtatcctttcagccttctgtggttgtctcttcatttcaaaggttttcccaccctggagcagccccagagtatgagtccagctacaggtcctgggtgctgacacactgacattggtcccttctcaccttgaatcatatcatagaaacatagaatcatagaatggcctgggctgaaaaggacctcaaagatcatccagtttcaaccctcctgccatgggcagggtcaccaaccactagaccaggctgcccagagccacatccagcctggccttggccagcacatggctgctgtgaggctgtggtgatggcacatactgcatgtctctgcagcaggcagagcatggacagatactgaagcagaagctgtaggaaagcagatctttatctgtatctaaactgagaaggaaaggaaaaaagccggaggaaaaaaaaaaaaaagaaaaagaaagaaaagaatccaatatcaaagttatgtttcacttttcctgagccccgtggtaagtgacttcatttcctaagaatattgctgttaagactagctgaaatgtgggagacccacccagagcatatctcaggctctggcctggtgaaataaatgatgttattgccttttctgctggacccaatgggtcag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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.
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