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

2024-03-29 01:45:53, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_047027798            1875 bp    mRNA    linear   VRT 04-MAR-2022
DEFINITION  PREDICTED: Hypomesus transpacificus vimentin like (viml), mRNA.
ACCESSION   XM_047027798
VERSION     XM_047027798.1
DBLINK      BioProject: PRJNA810474
KEYWORDS    RefSeq.
SOURCE      Hypomesus transpacificus
  ORGANISM  Hypomesus transpacificus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Stomiati; Osmeriformes;
            Osmeridae; Hypomesus.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_061069) annotated using gene prediction method: Gnomon.
            Also see:
                Documentation of NCBI's Annotation Process
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI
            Annotation Status           :: Full annotation
            Annotation Name             :: Hypomesus transpacificus Annotation
                                           Release 100
            Annotation Version          :: 100
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 9.0
            Annotation Method           :: Best-placed RefSeq; Gnomon
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..1875
                     /organism="Hypomesus transpacificus"
                     /mol_type="mRNA"
                     /isolate="Combined female"
                     /isolation_source="estuarine water [ENVO:01000301]"
                     /db_xref="taxon:137520"
                     /chromosome="10"
                     /sex="female"
                     /country="USA: Fish Conservation and Culture Laboratory,
                     Discovery Bay, California"
                     /lat_lon="37.824580 N 121.595404 W"
                     /collection_date="2019-10-10"
     gene            1..1875
                     /gene="viml"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Gnomon. Supporting evidence
                     includes similarity to: 82 Proteins, and 100% coverage of
                     the annotated genomic feature by RNAseq alignments,
                     including 43 samples with support for all annotated
                     introns"
                     /db_xref="GeneID:124472770"
     CDS             117..1478
                     /gene="viml"
                     /codon_start=1
                     /product="vimentin like"
                     /protein_id="XP_046883754.1"
                     /db_xref="GeneID:124472770"
                     /translation="
MSFRKSTSSYERMFGGAERPSWSGHSSRQFSSPMRSRVSFGLSSAPTIRASKTHRVRSSAPMPRLSSESLDFSLSDAINTEFKTNRTNEKVQMQSLNDRFASYIEKVRFLEQQNKILQAELEQLRGKGTSRIGDLYEEEMRELRRQVDQLTNEKARVDVHRDNLADDIERLREKLQEEIVQREEAEHTMHSFRQDVDNAALARLDLERKVESLQEEINFLKKLHDEELLELQSQMQEQHLQVDVDVAKPDLTAALRDVRLQYENLATKNIQESEDWYKSKFADLTEAAGRNSEALRVAKQEANDYRRQVQALTCEVDSLKGMNESLERQTREMEENFSLETTSCQDTIGRLEEDISNMKNEMARHLREYQDLLNVKMALDIEIATYRKLLEGEEGRISTPLPNFSSMNLRETMVLESKPHVESTSTKRVLIKTIETRDGQVINESTQNHDDLQ"
     misc_feature    132..377
                     /gene="viml"
                     /note="Intermediate filament head (DNA binding) region;
                     Region: Filament_head; pfam04732"
                     /db_xref="CDD:428095"
     misc_feature    378..1304
                     /gene="viml"
                     /note="Intermediate filament protein; Region: Filament;
                     pfam00038"
                     /db_xref="CDD:425436"
ORIGIN      
cgtcccgggacacattcttggtttggggaactccacggacacagcaaggtacagcagcagcaaattccaggagagcattacatcagctaaccgtttaaaagactgcgggatacactatgtcttttcgaaaaagtacttcctcatacgaaagaatgtttggaggagcagagagacctagctggtccggccactcaagccgtcagttctccagcccgatgcgctcccgggtctcctttggtctatcctccgcaccgaccatccgtgcctccaaaactcatagggtccgcagcagtgcaccgatgcctcgtttgtcatctgagagcttagacttctccctgtccgatgcgatcaacaccgaatttaaaaccaaccgcaccaatgaaaaagtgcagatgcaaagtctgaacgaccgttttgccagctacatcgaaaaggtacgttttctggagcagcaaaataagattctccaggcggagttggagcagttgcgtggaaaaggtacgtcccgcattggcgacctttacgaggaagagatgcgggaactcagacgtcaagtcgaccaactcacaaacgaaaaggcccgagtcgatgttcaccgcgacaaccttgcagacgacatcgagcgacttagagagaagttgcaagaagagattgtacagcgggaggaggctgaacacactatgcatagcttcaggcaggatgtggataatgctgctcttgccagactggacctggagcggaaggtggagtcacttcaggaagaaatcaacttcctcaagaagcttcacgatgaagagctgctggagctccagagccagatgcaggagcagcatctgcaggtggacgtggacgtggccaagccggatctgacagcggcactgagagacgtgcgtttgcagtacgagaacctggccaccaagaacatccaggagtccgaggactggtacaagtccaagtttgctgacttgaccgaggcagcgggccgcaacagcgaagccctccgagtggccaagcaggaggccaatgactacagacgccaggtgcaggctcttacctgtgaggtggactcccttaaaggcatgaatgagtcgctggaacgccagacgagggagatggaagagaacttctccttggagaccacaagttgccaggacaccattgggcgtctggaggaagacatcagtaacatgaagaatgagatggcccgccacttgagggagtatcaggacctgctcaatgtcaagatggcgttggacattgagattgccacctacaggaagcttctggaaggagaggagggcaggatttccactccactgccgaacttctcctccatgaacctgagagaaactatggtcctggagtccaaaccccatgtggaaagtacaagcaccaagagagttctgatcaagaccattgaaaccagggatggtcaggtgatcaatgagtctacccagaaccacgatgacttgcagtgatctgcaatgtgtctccactgacaaaagacctgtggcaacatgaagtaaaagcatttcccctcatgtaaaacaaaacctctccaaaatatctgggcaccagatatttatgctgtatgatgaaaagcctgtcaagaagccctccctatatttagacaaaaaagccgaaaaggctttcagctgagacattataatcacgttactttaaagcaaacaccggccagcagctatacagtctttgtatactttctatggtctgtacaaaataatgacatgtaaccaaaactttagcaaatgtttgcaaagcagtaccttgctccctcagtctgcacctgtatgtttaatgaaaagaaaaacattcagatacccttatagcattaataaactattttgaaaagtt
//

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]