XLOC_028386 (sim1b)


Basic Information

Item Value
gene id XLOC_028386
gene name sim1b
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007115.7
NCBI id CM002888.2
chromosome length 78093715
location 929557 ~ 948842 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00055130
ATGAAGGAGAAATCAAAGACTGCGGCGAGGACGCGGCGGGAGAAGGAGAACAGCGAGTTTTACGAGCTCGCCAAAATGTTGCCTTTGCCGTCCGCCATCACGTCTCAACTGGACAAAGCGTCCATCATCAGACTGACCAGCAGCTACCTGAAGATGAGACTGGTGTTCCCGCAAGGTTTGGGAGAGGTGTGGGGTCAAGCGGGGCGAACCAGATCTGGAGAAAACCCATCCCATGAGCTCGGATCTCATTTACTCCAGGTAATAATCAGCAAGATGCTCCAGACTTTAGACGGGTTTATATTTGTAGTGGCTGCGGATGGGAAGATCATGTACATCTCTGAGACGGCGTCGGTTCATCTGGGCCTTTCACAGGTAGAATTGACCGGAAACAGTATTTATGAATACGTTCATCCGGCGGATCATGACGAGATGGCGGCGGTGCTGACTCCACAACCTTCATATCATTCACACTTCGTCCAGGAGTACGAGGTGGAGCGATCGTTTTTCCTGAGGATGAAGTGTGTTTTGGCGAAGCGAAACGCCGGACTGACGAGTGGAGGATATAAGGTGATCCACTGCAGCGGGTACCTGAAGATCCGCCAGTTCAGTCTGGATGCGTCTCCGTTCGATGGCTGCTATCAGAACGTGGGTCTGGTGGCCGTCGGACACACACTCCCACCGAGCGCCGTCACAGAGATCAAACTACACAGCAACATGTTCATGTTTCGAGCCAGTCTGGACATGAAGCTCATCTTCCTGGACTCACGGGTGTCAGATCTGACCGGGTATGAGCCACAGGACCTGATTGAGAAGACCCTGTATCATCACGTGCACTGCTGTGACAGTTTTCACCTGCGCTGCGCTCATCACCTCTTGCTGGTCAAAGGTCAGGTGACCACTAAGTATTACCGCTTCCTGTCAAAGCGAGGTGGCTGGGTTTGGGTGCAGAGCTACGCCACAATCGTCCACAACAGCCGCTCGTCTCGACCGCACTGCATCGTCAGCGTCAACTACGTCCTCACggaCACGGAGTATAAGGGCCTGATTCTGTCTCTGGATCAGCTGAATCCCAGAAAACCAGCCTTTCCCTACGCAAACCACAGCGATAAAACACACACGACCAACAGCAGGAGTAAAATCCTGCTCTCTCACTACTCAcagCAGTTTTCCTCCTTCCCGCCGGATCGCTCAGACTCGGATCACGACAGCCAATGGGAGGACAGTCCTCTGACAGACTCCGCCTCCCCGCAGCGTCTGGACCGCAGCGATTCGGTGTGCTTCAGCCTCGCTCAGAGCGACGTGATGCAGTCgtgttcacaaacacacacacctctgttCAACAGAGACGGCTGGTGGGACGCACGCGCCGCAAACCAGCACTCGCAcgCGGTGTGGGATGAGGATCTGAGCTCTTCTTCAGCTCAGTCTGCAGACGGTGCTCAGAGTCTGATCAGAGCCGCGCCGGAGCTCATTAAGGTGGAGGAGGCTCACATGCGGGATTATTCCTCCTCCTCTCTGTTCTCCTCCGCCCGCCACAGAGATGGAGATCCGGACGGCAGCCCCGCGTCTCTGTCGGCCCTCAGCAGCCCCGGCTCCGACAGGCCGTCCCAGCCGCTGTCAGCCTCTCCGCCCGCGCtggagaccacacacacacaccccagccTGCGCGCGTATTCTGCACACTACGACATCAACACACACTTCCAGAGCAGCACAACGGCACACAACGGCACGTCTGTCATCATCACCAACGGCAGCTGA
>TCONS_00055131
CTGTGCGCGTGCCTCCCGGCGGATTTACCGGCACTCTGACGGGATTTTAACGCGATTAACGGCACGATGAAGGAGAAATCAAAGACTGCGGCGAGGACGCGGCGGGAGAAGGAGAACAGCGAGTTTTACGAGCTCGCCAAAATGTTGCCTTTGCCGTCCGCCATCACGTCTCAACTGGACAAAGCGTCCATCATCAGACTGACCAGCAGCTACCTGAAGATGAGACTGGTGTTCCCGCAAGGTGTGGGGTCAAGCGGGGCGAACCAGATCTGGAGAAAACCCATCCCATGAGCTCGGATCTCATTTACTCCAGGTAATAATCAGCAAGATGCTCCAGACTTTAGACGGGTTTATATTTGTAGTGGCTGCGGATGGGAAGATCATGTACATCTCTGAGACGGCGTCGGTTCATCTGGGCCTTTCACAGGTAGAATTGACCGGAAACAGTATTTATGAATACGTTCATCCGGCGGATCATGACGAGATGGCGGCGGTGCTGACTCCACAACCTTCATATCATTCACACTTCGTCCAGGAGTACGAGGTGGAGCGATCGTTTTTCCTGAGGATGAAGTGTGTTTTGGCGAAGCGAAACGCCGGACTGACGAGTGGAGGATATAAGGTGATCCACTGCAGCGGGTACCTGAAGATCCGCCAGTTCAGTCTGGATGCGTCTCCGTTCGATGGCTGCTATCAGAACGTGGGTCTGGTGGCCGTCGGACACACACTCCCACCGAGCGCCGTCACAGAGATCAAACTACACAGCAACATGTTCATGTTTCGAGCCAGTCTGGACATGAAGCTCATCTTCCTGGA

Function

symbol description
sim1b Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within cell differentiation; nervous system development; and regulation of transcription, DNA-templated. Predicted to be located in cytoplasm and nucleus. Predicted to be part of transcription regulator complex. Is expressed in caudal tuberculum; diencephalon; hypothalamus; midbrain; and preoptic area. Human ortholog(s) of this gene implicated in obesity. Orthologous to human SIM1 (SIM bHLH transcription factor 1).

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0005634 nucleus cellular_component
GO:0005667 transcription regulator complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0003677 DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function
GO:0046983 protein dimerization activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-041210-5 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within cell differentiation; nervous system development; and regulation of transcription, DNA-templated. Predicted to be located in cytoplasm and nucleus. Predicted to be part of transcription regulator complex. Is expressed in caudal tuberculum; diencephalon; hypothalamus; midbrain; and preoptic area. Human ortholog(s) of this gene implicated in obesity. Orthologous to human SIM1 (SIM bHLH transcription factor 1).

Ensembl:

ensembl_id ENSDARG00000013789

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00055130 False 1761 mRNA 0.56 11 929557 948776
TCONS_00055131 True 816 nonsense_mediated_decay 0.53 6 937229 948842

Neighbor

gene id symbol gene type direction distance location
XLOC_028385 NA coding downstream 7796 919752 ~ 921761 (-)
XLOC_028384 mrap2b coding downstream 20736 905483 ~ 908821 (-)
XLOC_028383 NA coding downstream 25535 899962 ~ 904022 (-)
XLOC_028382 crybg1b coding downstream 39337 861444 ~ 890220 (-)
XLOC_028381 sobpb coding downstream 71123 818928 ~ 858434 (-)
XLOC_028387 atp23 coding upstream 9209 958051 ~ 965267 (-)
XLOC_028388 naga coding upstream 33186 982028 ~ 992148 (-)
XLOC_028389 NA coding upstream 62118 1010960 ~ 1013095 (-)
XLOC_028390 NA coding upstream 65706 1014548 ~ 1015896 (-)
XLOC_028391 NA coding upstream 73474 1022316 ~ 1023700 (-)
XLOC_028375 CU855889.2 non-coding downstream 195210 701612 ~ 734347 (-)
XLOC_028376 NA non-coding downstream 197073 723830 ~ 732484 (-)
XLOC_028373 NA non-coding downstream 532738 393551 ~ 396819 (-)
XLOC_028392 NA non-coding upstream 79994 1028836 ~ 1036046 (-)
XLOC_028393 NA non-coding upstream 105819 1054661 ~ 1259741 (-)
XLOC_028394 NA non-coding upstream 274322 1223164 ~ 1234236 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01163466_00001759_00006434 NA coding CI01163466 null 1107 ~ 6434 (+)