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Previous release (v1)
2026-03-05 04:31:39, GGRNA.v2 : RefSeq release 233 (Jan, 2026)
LOCUS XM_073954455 6604 bp mRNA linear VRT 12-MAY-2025
DEFINITION PREDICTED: Danio rerio cell adhesion molecule L1-like b (chl1b),
transcript variant X3, mRNA.
ACCESSION XM_073954455
VERSION XM_073954455.1
DBLINK BioProject: PRJNA1248012
KEYWORDS RefSeq.
SOURCE Danio rerio (zebrafish)
ORGANISM Danio rerio
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Actinopterygii; Neopterygii; Teleostei; Ostariophysi;
Cypriniformes; Danionidae; Danioninae; Danio.
COMMENT MODEL REFSEQ: This record is predicted by automated computational
analysis. This record is derived from a genomic sequence
(NC_133181) annotated using gene prediction method: Gnomon,
supported by EST evidence.
Also see:
Documentation of NCBI's Annotation Process
##Genome-Annotation-Data-START##
Annotation Provider :: NCBI RefSeq
Annotation Status :: Full annotation
Annotation Name :: GCF_049306965.1-RS_2025_04
Annotation Pipeline :: NCBI eukaryotic genome annotation
pipeline
Annotation Software Version :: 10.3
Annotation Method :: Best-placed RefSeq; Gnomon;
cmsearch; tRNAscan-SE
Features Annotated :: Gene; mRNA; CDS; ncRNA
Annotation Date :: 04/11/2025
##Genome-Annotation-Data-END##
FEATURES Location/Qualifiers
source 1..6604
/organism="Danio rerio"
/mol_type="mRNA"
/strain="Tuebingen"
/isolation_source="Zebrafish international resource
center"
/db_xref="taxon:7955"
/chromosome="6"
/sex="male"
/tissue_type="Fibroblasts and whole tissue"
/dev_stage="adult"
/ecotype="United States"
/geo_loc_name="USA"
/collection_date="2022-07-19"
/collected_by="National Human Genome Research Institute"
/genotype="Double heterozygous"
gene 1..6604
/gene="chl1b"
/note="cell adhesion molecule L1-like b; Derived by
automated computational analysis using gene prediction
method: Gnomon. Supporting evidence includes similarity
to: 2 ESTs, 2465 long SRA reads, 4 Proteins"
/db_xref="GeneID:100318566"
/db_xref="ZFIN:ZDB-GENE-091105-1"
misc_feature 1
/gene="chl1b"
/experiment="COORDINATES: cap analysis [ECO:0007248]"
/note="transcription start site"
CDS 169..4035
/gene="chl1b"
/codon_start=1
/product="neural cell adhesion molecule L1-like protein
isoform X2"
/protein_id="XP_073810556.1"
/db_xref="GeneID:100318566"
/db_xref="ZFIN:ZDB-GENE-091105-1"
/translation="
MRLLRKTLLLLAACLNMSSRYQTNALEIPLDVEQLPTITEYSPASLIAFPFEESFPVKCEATGNPEPEFRWTKNGQDFDPYQDTRLITLDDSGTFIIPNTGNLTEFQGIYRCFATNKLGTAMSEEIEFIIPNVPKFPKEIIDPIEVMEGQSVILECNPPTGIPPLQIYWMTISLQHIEQDERVSVGLNGNLYFSNTVETDSRRDYCCFAAFPRIRTIVQKTAMSMVVKSNKLMKDSSSGSGRGYANSLLERKPSLLAPTGMESHTRLVKGEDLQLECIAEGFPTPKVEWVKIGFNKLPERVVVESHGKLLTVEMVNEEDEGKYMCRAKNPHGEVVHHFHVTVEEPPEFEIEPQSQLVTIGADVLIKCVVKGNPQPTVGWRVNGRPLNEVPTSNRKILKDGTISIHNANPENSAVYQCEATNKHGTILANANIMIMNIQPLILTENNLQYMAVEGKSVVMHCKVFSSPASSITWSKADSANAVEGERFTVHQNGSLEIHNVMKEDMGEYSCFAQNTEGKVAIAATLEVKDPTRIVDPPRDLRVLAGTTIQFSCQPEFDPSFGDDFEVLWEKDGIALNGSEDGRYILEDGVLEIINVSFGDQGFYACVARTPVDQDVAVAQLSVVDVPDPPEDVILSEHNGRSVKLQWTPGDDHNSSITEFVLEFEESQHEPGSWREMMRVPGNHHSAPLKLYGHVDYRFRVSAINEVGKGRPSQSTERYKTPASAPDKNPENIKIEAHLPHEMDINWEPLSPIEHNGPGLEYKVSYRRHGSDEDWTERMVKRHSFLVKNTPTFVLYEIKIQAKNHAGWGPDPKIITAYSGEDFPSAAPDDVAVEVLNNTMVKVRWEHVHKDKIHGHLGGYRVSWWRLRSLLDSKKTHGDKHTLTFSGERNHAVVTGLKPFSEYSLIVMAFNSRGNGPGSHSVNFKTPEGVPGQAAAFSATNIQKHKVTLTWSPPVDANGVLIGYILQYQLINNTEELGPLMTLNISADSNKQHLENLEALSKYKFYLRCCTRVGCGPAVSEERTTVPEATSTDVASFNIRKSSSRFPPRKTTVSPVANATLSSIAVLNISTSVSHNYANISWIPGTEQTESELYVAFMNNREGNWKISDMLNSSKTFHIIEGLEPGTEYTVRLMTKSWVDNSSIFEDVIRTRAKGLASIHGSISNQGWFIGLMCAIALLTLIVLIACFVNRNKGGKYSVKEKEDLHPDLESQGINDDTFCEYSDNDEKPLKSSQHSLNGDLKGGDSGDSMVDYCDEDAHFNEDGSFIGEYSGRKDRASMEIKGNNQSTA"
misc_feature 274..555
/gene="chl1b"
/note="Immunoglobulin domain; Region: Ig; cl11960"
/db_xref="CDD:472250"
misc_feature 331..345
/gene="chl1b"
/note="Ig strand B [structural motif]; Region: Ig strand
B"
/db_xref="CDD:409396"
misc_feature 370..384
/gene="chl1b"
/note="Ig strand C [structural motif]; Region: Ig strand
C"
/db_xref="CDD:409396"
misc_feature 445..459
/gene="chl1b"
/note="Ig strand E [structural motif]; Region: Ig strand
E"
/db_xref="CDD:409396"
misc_feature 493..510
/gene="chl1b"
/note="Ig strand F [structural motif]; Region: Ig strand
F"
/db_xref="CDD:409396"
misc_feature 535..546
/gene="chl1b"
/note="Ig strand G [structural motif]; Region: Ig strand
G"
/db_xref="CDD:409396"
misc_feature 580..852
/gene="chl1b"
/note="Immunoglobulin domain; Region: Ig; cl11960"
/db_xref="CDD:472250"
misc_feature 622..636
/gene="chl1b"
/note="Ig strand B [structural motif]; Region: Ig strand
B"
/db_xref="CDD:409432"
misc_feature 664..678
/gene="chl1b"
/note="Ig strand C [structural motif]; Region: Ig strand
C"
/db_xref="CDD:409432"
misc_feature 733..747
/gene="chl1b"
/note="Ig strand E [structural motif]; Region: Ig strand
E"
/db_xref="CDD:409432"
misc_feature 778..795
/gene="chl1b"
/note="Ig strand F [structural motif]; Region: Ig strand
F"
/db_xref="CDD:409432"
misc_feature 826..837
/gene="chl1b"
/note="Ig strand G [structural motif]; Region: Ig strand
G"
/db_xref="CDD:409432"
misc_feature 949..1194
/gene="chl1b"
/note="Immunoglobulin domain; Region: Ig; cl11960"
/db_xref="CDD:472250"
misc_feature 985..999
/gene="chl1b"
/note="Ig strand B [structural motif]; Region: Ig strand
B"
/db_xref="CDD:409394"
misc_feature 1024..1038
/gene="chl1b"
/note="Ig strand C [structural motif]; Region: Ig strand
C"
/db_xref="CDD:409394"
misc_feature 1090..1104
/gene="chl1b"
/note="Ig strand E [structural motif]; Region: Ig strand
E"
/db_xref="CDD:409394"
misc_feature 1132..1149
/gene="chl1b"
/note="Ig strand F [structural motif]; Region: Ig strand
F"
/db_xref="CDD:409394"
misc_feature 1171..1182
/gene="chl1b"
/note="Ig strand G [structural motif]; Region: Ig strand
G"
/db_xref="CDD:409394"
misc_feature 1225..1464
/gene="chl1b"
/note="Immunoglobulin domain; Region: Ig; cl11960"
/db_xref="CDD:472250"
misc_feature 1255..1269
/gene="chl1b"
/note="Ig strand B [structural motif]; Region: Ig strand
B"
/db_xref="CDD:409367"
misc_feature 1294..1308
/gene="chl1b"
/note="Ig strand C [structural motif]; Region: Ig strand
C"
/db_xref="CDD:409367"
misc_feature 1366..1380
/gene="chl1b"
/note="Ig strand E [structural motif]; Region: Ig strand
E"
/db_xref="CDD:409367"
misc_feature 1408..1425
/gene="chl1b"
/note="Ig strand F [structural motif]; Region: Ig strand
F"
/db_xref="CDD:409367"
misc_feature 1447..1458
/gene="chl1b"
/note="Ig strand G [structural motif]; Region: Ig strand
G"
/db_xref="CDD:409367"
misc_feature 1489..1749
/gene="chl1b"
/note="Immunoglobulin domain; Region: Ig; cl11960"
/db_xref="CDD:472250"
misc_feature 1537..1551
/gene="chl1b"
/note="Ig strand B [structural motif]; Region: Ig strand
B"
/db_xref="CDD:409544"
misc_feature 1576..1590
/gene="chl1b"
/note="Ig strand C [structural motif]; Region: Ig strand
C"
/db_xref="CDD:409544"
misc_feature 1645..1659
/gene="chl1b"
/note="Ig strand E [structural motif]; Region: Ig strand
E"
/db_xref="CDD:409544"
misc_feature 1687..1704
/gene="chl1b"
/note="Ig strand F [structural motif]; Region: Ig strand
F"
/db_xref="CDD:409544"
misc_feature 1726..1737
/gene="chl1b"
/note="Ig strand G [structural motif]; Region: Ig strand
G"
/db_xref="CDD:409544"
misc_feature 1753..2055
/gene="chl1b"
/note="Immunoglobulin domain; Region: Ig; cl11960"
/db_xref="CDD:472250"
misc_feature 1810..1824
/gene="chl1b"
/note="Ig strand B [structural motif]; Region: Ig strand
B"
/db_xref="CDD:409359"
misc_feature 1861..1875
/gene="chl1b"
/note="Ig strand C [structural motif]; Region: Ig strand
C"
/db_xref="CDD:409359"
misc_feature 1930..1944
/gene="chl1b"
/note="Ig strand E [structural motif]; Region: Ig strand
E"
/db_xref="CDD:409359"
misc_feature 1972..1989
/gene="chl1b"
/note="Ig strand F [structural motif]; Region: Ig strand
F"
/db_xref="CDD:409359"
misc_feature 2011..2022
/gene="chl1b"
/note="Ig strand G [structural motif]; Region: Ig strand
G"
/db_xref="CDD:409359"
misc_feature 2044..2316
/gene="chl1b"
/note="Fibronectin type 3 domain; One of three types of
internal repeats found in the plasma protein fibronectin.
Its tenth fibronectin type III repeat contains an RGD cell
recognition sequence in a flexible loop between 2 strands.
Approximately 2% of all...; Region: FN3; cd00063"
/db_xref="CDD:238020"
misc_feature order(2044..2046,2242..2244,2287..2289)
/gene="chl1b"
/note="Interdomain contacts [active]"
/db_xref="CDD:238020"
misc_feature <2254..3453
/gene="chl1b"
/note="Fibronectin type 3 domain [General function
prediction only]; Region: FN3; COG3401"
/db_xref="CDD:442628"
misc_feature order(2290..2295,2299..2304)
/gene="chl1b"
/note="Cytokine receptor motif [active]"
/db_xref="CDD:238020"
misc_feature 3358..3576
/gene="chl1b"
/note="Fibronectin type 3 domain; Region: FN3; smart00060"
/db_xref="CDD:214495"
misc_feature 3736..3987
/gene="chl1b"
/note="Bravo-like intracellular region; Region:
Bravo_FIGEY; pfam13882"
/db_xref="CDD:464016"
polyA_site 6604
/gene="chl1b"
/experiment="COORDINATES: polyA evidence [ECO:0006239]"
ORIGIN
agacattctgctgtcgcgcgctgactaacagctccagctcttcccgcaaaaaactcctgtgaaaggtagcgagaccacagcctgggttggagtgagatgcactgactcctggcagactgcagatttccctgtcatcctccgctctcgcctctgaaactgtggccagtcatgcggttgttacggaaaaccctgcttcttttggctgcttgccttaatatgagcagcaggtatcaaactaacgccctggaaattccacttgatgtggagcagctgcccacaattacagagtactctcctgcctcgctcatcgccttccctttcgaagagagcttccctgtgaagtgtgaggccacaggaaaccctgaaccagaattcaggtggacaaagaacggccaagactttgatccgtatcaggacaccagattgataacgttagatgattccggaacattcatcattcccaataccggaaatctcactgaattccagggcatttatcgctgttttgcaaccaacaaattggggacagccatgtcagaagaaattgagttcattattcctaatgtcccaaagttccccaaagagatcatcgatccgattgaggtgatggaaggtcagtcagtcattctagagtgcaatccacctacagggatccctccattgcaaatctactggatgacaataagtctacagcacatcgagcaggacgaaagagtgtcagtgggtctgaatggaaacctgtacttctcaaacaccgttgaaactgatagccgcagagactattgctgctttgctgccttccctcgcatccgaactatcgtccagaaaaccgctatgtccatggtggtcaaaagcaacaagttaatgaaggactcaagctctggtagcggcagaggttatgcaaactccctgttggagaggaagcccagcctgttggcgcctacaggaatggagtcacatacacgcctggtgaaaggtgaagatcttcagttggagtgtatagcagagggattccccacgccaaaggtggaatgggttaaaataggcttcaacaagcttccagaaagggttgttgtggagagtcatgggaagctgctcactgttgagatggtgaatgaggaggatgaaggcaaatatatgtgcagagccaaaaatccccacggagaggtggtgcatcattttcatgtgacagtagaggagcctcctgagtttgagattgaacctcaaagccaactggtgacgattggagctgatgtattgatcaagtgtgtcgtgaaaggaaatcctcaacctactgtaggatggagagttaacgggcggccactgaacgaggtcccaacatccaacaggaagatcttgaaagatggcacaatttccatccacaatgcaaacccagaaaacagtgctgtttaccaatgcgaggcaaccaacaaacacggcaccatcctggccaatgccaacatcatgattatgaacatccagccgctgatcttaacagaaaacaatctgcaatatatggcggtggaggggaaaagtgtggtcatgcactgcaaggtcttcagctctccagcctccagcattacgtggagtaaagctgacagtgcaaatgcagtggaaggagaacggtttactgttcaccagaatggttcactggagatccataatgtgatgaaagaggacatgggagagtattcttgctttgcacaaaacaccgaaggcaaagttgccattgctgcaacacttgaagtcaaagatcccaccagaatagtcgatcctccacgtgatttgcgggttttggcgggaaccactattcagttttcatgccagccagagtttgatccctcttttggtgatgactttgaagtcctgtgggagaaagatggcattgccctcaacggcagcgaagatggaagatatatcctggaagacggagtgctggagatcattaatgtgagtttcggagaccagggcttttacgcgtgtgtggccagaacgcccgttgaccaagacgttgcagtggcacagctttcagtcgtggatgttcctgatccaccagaggatgtgatactgtctgaacataatggccgaagtgtgaaactgcagtggactccgggagatgaccataatagctccattaccgagtttgttctagagtttgaagaaagccaacatgagccaggcagctggagggagatgatgagagtcccaggaaaccatcactcagctccgctgaagctttatggacatgtggactaccgcttcagagtctccgccatcaacgaggtgggcaaaggtcggccaagccagtccactgaaagatacaaaactccagcatcagcacccgacaagaacccagaaaatatcaagatcgaagctcatttgccacatgaaatggatatcaactgggagccgttgtcacctattgaacacaacgggcctggtctggagtacaaagtgagctacaggagacatggcagcgatgaagactggacggagcgcatggtgaagaggcactcatttctggtcaaaaacaccccgacgttcgtcctttacgagatcaaaattcaggccaagaaccacgcgggctggggtccggaccctaaaataataacagcgtactcgggagaggatttcccctcagcagctccagatgatgtagccgtagaagtgttgaacaacactatggtgaaggtcagatgggaacatgttcacaaggacaaaatacatggacatctgggtggctacagggtgagctggtggaggcttcgtagtctgctggactcaaagaaaacacacggcgacaagcacacattgacattctcaggcgagaggaaccatgcggtggtcacaggtcttaagccgttctccgaatacagcctcattgtcatggcctttaacagcagaggaaacggtcctggcagtcattcggtcaacttcaaaacccctgagggagttcctggtcaagcagctgctttcagtgctacaaacatccagaagcacaaggtcaccttgacctggtctcctccagttgacgcaaatggagtcctaattggctacatcctccaatatcagctaataaacaacacagaggaactaggccctctgatgacactcaacatctccgccgacagcaataagcagcacctcgaaaacctggaagccctgagcaaatacaaattttaccttcggtgttgcacgcgggtgggctgcggtcctgcggtcagcgaggagcgcaccaccgtccctgaagccacttcaacagatgtggcctctttcaacatcagaaaatccagctcacgatttcctccaagaaaaaccactgtttcccctgtggctaatgctactctttcttctatagcggtgttgaatattagcacctcagttagtcacaactatgcaaatatcagctggattccaggcacagaacagacggagtcagagttatatgttgcctttatgaacaaccgtgaaggtaactggaagatatccgacatgctaaactcttctaagactttccacatcattgaagggctcgaacctggaaccgaatacacagtgcgtcttatgacaaaaagctgggttgataattctagtattttcgaagacgttatcaggaccagggccaaaggtctggccagcattcatggaagcatctcaaaccagggatggttcatcggactcatgtgtgccatagcgcttctcaccctcattgtgctcatagcgtgctttgtcaaccgaaacaaaggcggcaaatactcagtaaaagagaaggaagacctccaccccgacctggagtcccagggcataaatgatgacaccttctgtgaatacagtgataatgatgagaaaccgctgaaaagcagccagcattcattgaatggcgacttgaaaggaggagacagcggagacagcatggtggactactgtgatgaggacgctcacttcaacgaggacggctcttttatcggagaatactctggacgcaaggacagggcctccatggaaatcaagggaaacaatcagagcacagcgtaatggaccacggacaatttatttgttggacaagctctcacaaaaggtcagtcaaaaggaagcggagggaataaaagtgtggcgtaacagcacccgaaggacatttttgcaattaatgtgttattgtcaaatcctcagtcatactcacatcattttttacagggcttagttgtttccatttttttctgcgtgctgttactgatcaatcatgtcagttgtgtatacttttgtgaggtgtttttgtattaaatctttgcaaatcattgatgactgccgggaaagttctgctttcaacgtcatcatgtagccaagccagtttttctgtcagggtatatgaactttgtatttttatttttcattccaggcaaatattattgacattttatatttcagacactgtatactgtgcgttcattaaatgtgggttattatgtgtacaaaaggagttgttgcttaaataatcataagttctgttaaaatccaaaaaaaatgaaagaaagcgtaaggcgatgtaagggtttacaattagtgtaaaatgctttgatgaacagtttcacattgagctatactaacaagcttaatagccatattcagcaccacataaaccctacagtgcatctgctgctgttttaaccctttacatacagtataatacagtattttatcaaaaagacacctaatgttcatacatttaaagaaaaaaaaatgcctcaattgccttataatgactttgaatctggtaagtaagatataacaatggggtatgtgcacatggagttttaatttcagccagccagcctcagtgtttccggtgaactgtctttcctttataaaatcgccacgtttaagatctggtttcgttagaaatcagtgatcctcactgcctgatagatatacaatgtgaagagggtctcagatcgaaaaaagaagcactgcatttaatttcattttccctttccatgtctttaaaatatgtacaattaatttttgtattttcaattgagtttctgcattagcctgctgatactgatggcgtgtcacagatgttttcatactgcatgactatctagggtagcattctgttagtgatgtgtttacattttaggatggattggcgacagggggtttcacactgcatgactttacagtaggaagaatcgccgttgactttgtccaaactttgtctcacaatcaaacacacaagagaagtgacatggaaaaggatgtccgcgaggtcctaaaatgtattaaaagttgattaatcaattaagagaaaattaaagcttaaaaggtatttaaaaagtcttaatcacacttttacgaggttttataaattagctcaagcattgtccaaagtgtttgattccaaaaagtataatatatttatggctcgatccacgcgattggttcaggccggggtatgtccggccaagctcctccgttcgagtgatgtcacgtaatttgcaacaaatacgggaaggtgatgctctccacatgtagcgaaaccatagagcgaaacagacggcaaaatgagaaaatgtaagtactcctggttggagaaagacgagtttaaacagtagctgaagcctgtcgtttaaaacaaccacgtaatttattctttcaagctttgtttcttcttgagttctgttgcatgattatgctctattgatttaactacaacacgtagtgtatcttgggttatcaaccatatgcctttagtggggtagcaaatgtacttatttctcctcaacattttattctttatcgatccagttgtggtgttgctcagatgacatgtcaaacagatgcgtgtgctcctgccaaatttccatagttttcctccttttcttggatccaaataaactgagattgagcgcttttaacttctccctgctgatacccatactagcggatgcagctctctcattggctgcaggtaatcgcaaatgttattttcaatcagaacacatttcacacagcatgatttgaatcgccgacagacccaaatatttagcacgccaaatatctcaagggtgtcagcgactcatctgggattctctcagatcgcgtctttgatagttcatactgtgtgattgttactcacatgaatgagcaacgattcacttttgatttcaggcatttgtctgcgatttctcaaaacctgtcggcaaaaaatctgggctaaactcttgcagtctgaactcggcataagtctatttaactgaatgtatttgaattacattataacattgatgctgtaaaaggaacattatgaaactgagaatgtctggctggaaacactagctgtgcatataccccattctcatggattccgtgatacagggttggaattctacaaattccacattggcatcctttgaaatatttctcttcacaaacggacagttctgaaagccaacaagtcttgtttgaacaattctgtatgtttttttgcaatggctccacatatagagtcaaagccagattctgtacaatgttctgtgaattctgtttgcatgttgaaagaggtctgtgtgcagatttgacattaaattgtatcatttctttcttc
//
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]