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

2024-03-28 23:38:08, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       NM_001124224            2127 bp    mRNA    linear   VRT 09-NOV-2020
DEFINITION  Oncorhynchus mykiss NK2 homeobox 1b (nkx2.1b), mRNA.
ACCESSION   NM_001124224
VERSION     NM_001124224.1
KEYWORDS    RefSeq.
SOURCE      Oncorhynchus mykiss (rainbow trout)
  ORGANISM  Oncorhynchus mykiss
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Protacanthopterygii;
            Salmoniformes; Salmonidae; Salmoninae; Oncorhynchus.
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from AB159044.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AB159044.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN02178821, SAMN05195102
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..2127
                     /organism="Oncorhynchus mykiss"
                     /mol_type="mRNA"
                     /db_xref="taxon:8022"
                     /chromosome="8"
                     /map="8"
     gene            1..2127
                     /gene="nkx2.1b"
                     /note="NK2 homeobox 1b"
                     /db_xref="GeneID:100135830"
     exon            1..482
                     /gene="nkx2.1b"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    110..112
                     /gene="nkx2.1b"
                     /note="upstream in-frame stop codon"
     CDS             116..1150
                     /gene="nkx2.1b"
                     /note="transcription factor Nkx2.1b"
                     /codon_start=1
                     /product="NK2 homeobox 1b"
                     /protein_id="NP_001117696.1"
                     /db_xref="GeneID:100135830"
                     /translation="
MSLSPKHSTPFSVTDILSPIEETYRKFGGMDCTGSLASPLGAYRQTSVSQPGLQQHSMGHNNGVASAYHMPHSVSQFSSAMGGYCNGSIGNMGDLPSYQDTMRNGAAATAWYSANTEPRYPTISRFMGASNGMNMAGMGTLAGMDATKSMVTLHSAPRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLSPTQVKIWFQNHRYKMKRQAKDKATLQIQQENGNVCPQQSPRRVAVPVLVKDGKPSQNGSSTPTSGHQQVQQQNVSSGAMTASGSAVVNHHQNQLVHHPLSTAEELEEMSPSPPILHSQINMAQTEAALIEYTNNMVSSNLLYGRTW"
     misc_feature    order(590..604,608..610,659..661,677..679,716..718,
                     722..727,734..739,743..751,755..760)
                     /gene="nkx2.1b"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    596..757
                     /gene="nkx2.1b"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
     misc_feature    order(596..598,605..607,725..727,734..739,746..748)
                     /gene="nkx2.1b"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     exon            483..2127
                     /gene="nkx2.1b"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
ctcagacggacccacaagtactctattacgtaggtgtcctgtgagcagtgaggggacaacagcaccacagtcgggcttgttccgcgttcagccatattcacctgcgggctaaaccatgtccttgagcccaaagcactcaactcctttctcagtgacagatattttaagcccgatcgaggagacctacagaaagtttggaggaatggactgtacagggagcctcgcgtctccgctgggagcatatcgacagacttcggtgtctcaaccgggactgcagcagcactccatgggccataacaacggggtggcgagcgcttatcacatgccacacagcgtctcccaattttccagcgccatgggtggatactgcaacggcagcatcggtaatatgggagacctcccgtcgtaccaagacaccatgaggaacggcgcagcagcaactgcatggtatagcgcaaacaccgaaccccgctatccaacaatttctagattcatgggggcttccaatgggatgaacatggccgggatggggacgcttgctgggatggacgccaccaagtccatggtgaccctacactcagcgcccaggagaaaacgaagggtgctcttctctcaggcccaggtgtacgagctggagaggcggtttaagcagcagaaatacctgtcagcacctgagagggaacacctagcgagcatgatccacctgtcaccgacacaggtcaagatttggttccagaaccaccggtacaaaatgaaacgccaggcgaaggacaaagccacactgcagattcaacaggagaatggcaatgtgtgcccacagcagtcaccgaggcgtgtggcagtcccggttctcgtgaaggatggtaagcccagtcagaacggatccagcacaccgacgtctgggcatcagcaggtgcagcagcagaacgtctctagtggagcgatgacagcttcgggcagtgcggtggtcaatcaccatcagaatcagctggtgcatcatccattatccactgctgaagaactggaggaaatgtcccccagtccccctattttacacagccagattaacatggctcagacagaagcggctctcatcgagtacaccaataacatggtcagttcaaacctgctttatggcagaacttggtagaaggaagaaatgtacatttgaattcgggagacaataacgtcaagtggattttaagccggaaagacattggtcgttgatgacattgaggacaacagaagcaccagaatttcttgacattttgggaggtgcatggtgcacatattattaattaacagtcggccgtgcgtgtatacttttgatcaagagtatttgataaaaatgagactcccaagcactccgtaacggtattattcgggtgtaaaagggagtgaagttatttgttgcgattcaattctttaaggacacgagggtatcagtccgaagtattgtaatatttcgatgaatgaaccttaactgtatatagctaacaaaaatatttcatgtgactatgatttttgtttttaaacgaaatatttgttaaaaaattgttttggtaaattacaaaatgtgattgctgctgcatagcgtacatatatacaaatcacattcctgttaaactttaacaatatatcgcttggcatgtaagcattactgcttatttatgttgatagaataattatgaggcacattgactggaatgcatcgaatttcacaggtatagcacaatgatttcaaacagatctaatgtaatttaattattcaaatgatattgtactttacattatagcaatgttacaatttgtgttgtttctttcttattaccaccacacaattattgaaagaaaacagattcaatacatgtaaattccaatattttctgccattacaagccatcatggttaagtggagataaacatttaagcacctagtctatacagcatgatataaagtcctaaaacgcaagactacttgcaggagattaaattggacctgttaggctaatgtttgggcgaaaaaggtatattatcaggtgatgaaaggttagaatttccaagcaactgtaactgcactcaattgtttcagattgtcatttccaataaatatatatattttttttt
//

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]