XLOC_025543 (smarce1)


Basic Information

Item Value
gene id XLOC_025543
gene name smarce1
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 34985895 ~ 34995062 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00050334
AGATGCTGCTCAAAATGTGTCACATCCTGGCGGAGCACCATTGAGGGAACAAAGGAGCTGGGGAACCAAATGATGGGGATAGCGTGATATCCTCAACCCTACAATCAAGATGTCAAAGCGGCCCCCCTATGCCCCTGCCCCCACCCCGGCCCCCACAACACAAATGCCCACCACCCCTGGGTTTGTGGGGTACAACCCATACAGCCATCTGGCCTACAACAACTACAGGCTGGGAGGGAACCCCAGCGGGAACAACAGGAACTCCTCAGGGATCACTGTTCCTAAGCCGCCCAAACCGCCCGACAAGCCGCTGATGCCCTACATGCGGTATAGCCGGAAGGTTTGGGACCAAGTTAAAGCCTCTAATCCTGACCTGAAGCTATGGGAGATTGGCAAGATCATTGGTGGCATGTGGAGGGACCTCACCGATGAGGAAAAACAGGACTATTTAAATGAATATGAGGCAGAAAAGATTGAGTATAATGACTCTCTGAAGGCCTACCACAACTCTCCAGCCTACCTTGCGTACGTTAATGCAAAGAACCGCGCAGAAGCAGCTCTAGAGGAAGAAAGCCGGCAGAGACAGTCACGTTTAGACAAAGGGGAGCCCTACATGAGCATCCAACCCGCTGAGGACCCCGATGACTATGACGACGGGTTCTCCATGAAGCACACAGCGGCAGCTCGTTTCCAGCGGAATCACCGGCTAATCAGTGACATTCTGAGTGAGGTGGTGGTGCCTGATGTTCGCTCGGTCGTGACCACCGCTCGCATGCAGGTCCTCAAGCGCCAGGTCCAGTCCCTCATGGTGCACCAGCGAAAACTGGAGGCCGAGCTGCTTCAAATCGAGGACCGGCATCAGGAGAAGAAGAGGAGATTCCTGGAGAGCACAGACTCCTTCAATAACGAGCTCAAACGGCTCTGCGGTCTGAAAGTGGAGGTGGACATGGAGAAGCTGGCAGCTGAAATGGCTGCTGCAGAAGAGGCGGCTCGCCGGAGGGCGGAGGAGAGAGAGCGGGAAGCAGCGGAGCAGGTGGAGCGAGCCGCTCAAGAAGAGCAACAGCCCGCCAGCGCCCAGGCCAATGCCAACACAGAGCAGACCTCTGCCAGCGAGACCAAGGATGGAGAAGACAAGCCCACCCCGATGGAGACAGAGTCTCTTGCTGAAACTTCTGAAGGATCTCAGGAGGCTGAGCAAGGCACACCTGCAGCAGGAGAGAAAGCAGCCCAGCCTGAGCCTGCAGAGGGCGCAACAGACGAGGGCACCAGCGACAGCACGGCTCCATCTGAGAGCAGCTCCGGACCCCCAGCAGAACACCAGACCGCATCAGACAACACCCCTGAGGAGCGCCTGCCCACCCAGCCACAATaacacatccacacactctcacctCGCTCTGCGTAGAGTCATGTGTCCTCTAGGATTTACCGGTTAATCCTGTGACCTGGCAGTGCATGAGAGTGAGAACAGTGAAAATTACTTTTCTCCCCCTCATAATCATCTACAGTGACAATGACAGCAAATTCTTAATTGCCGTTTCACAGAGATTCACCTGTTCACTTGAACTGAAGCCTGATGTTACAAGCCCCCTTCAGTCATCTTAAGCTTTATGGCCATTTAAACGTCATTTTATCTTTTTAAAGCAGAAATAAATTAAGCAGATGTTGtgtaaaatgtaactttttcatCTTGTAGACACCAAATGGGTTGCGAAAGCAGAACGGCAAGGTTATTTGCTGTTGCCTTACCATTTATCTACCTGTGGCATGGCCATTTTATGCTGTATCTTTGTTTCTGATATTTTTTTCACTATTTAGTTGAGTAGTTTGTGGATTTAGTGCTTCTCTTTCTCTCACTTTATTCAAGATTTCTTTTgtacatttttccaaaataaagcCATGCTAACATTTCATAATTTTTCATCGCAACAGATTGACCATCCAGAGCAGAGGGACACTGTTCTGCTGGTGTCTTCATGGAATGGTATTATATTAAGCCTCTGGATTattgtgtttttgtattgttgGAAGGTATTCCCTCAATAAAGTGATTTCTATGTCTGTTTTAAAAA
>TCONS_00050335
ATGTCAAAGCGGCCCCCCTATGCCCCTGCCCCCACCCCGGCCCCCACAACACAAATGCCCACCACCCCTGGGTTTGTGGGGTACAACCCATACAGCCATCTGGCCTACAACAACTACAGGCTGGGAGGGAACCCCAGCGGGAACAACAGGAACTCCTCAGGGATCACTGTTCCTAAGCCGCCCAAACCGCCCGACAAGCCGCTGATGCCCTACATGCGGTATAGCCGGAAGGTTTGGGACCAAGTTAAAGCCTCTAATCCTGACCTGAAGCTATGGGAGATTGGCAAGATCATTGGTGGCATGTGGAGGGACCTCACCGATGAGGAAAAACAGGACTATTTAAATGAATATGAGGCAGAAAAGATTGAGTATAATGACTCTCTGAAGGCCTACCACAACTCTCCAGCCTACCTTGCGTACGTTAATGCAAAGAACCGCGCAGAAGCAGCTCTAGAGGAAGAAAGCCGGCAGAGACAGTCACGTTTAGACAAAGGGGAGCCCTACATGAGCATCCAACCCGCTGAGGACCCCGATGACTATGACGACGGGTTCTCCATGAAGCACACAGCGGCAGCTCGTTTCCAGCGGAATCACCGGCTAATCAGTGACATTCTGAGTGAGGTGGTGGTGCCTGATGTTCGCTCGGTCGTGACCACCGCTCGCATGCAGGTCCTCAAGCGCCAGGTCCAGTCCCTCATGGTGCACCAGCGAAAACTGGAGGCCGAGCTGCTTCAAATCGAGGACCGGCATCAGGAGAAGAAGAGGAGATTCCTGGAGAGCACAGACTCCTTCAATAACGAGCTCAAACGGCTCTGCGGTCTGAAAGTGGAGGTGGACATGGAGAAGCTGGCAGCTGAAATGGCTGCTGCAGAAGAGGCGGCTCGCCGGAGGGCGGAGGAGAGAGAGCGGGAAGCAGCGGAGCAGGTGGAGCGAGCCGCTCAAGAAGAGCAACAGCCCGCCAGCGCCCAGGCCAATGCCAACACAGAGCAGACCTCTGCCAGCGAGACCAAGGATGGAGAAGACAAGCCCACCCCGATGGAGACAGAGTCTCTTGCTGAAACTTCTGAAGGATCTCAGGAGGCTGAGCAAGGCACACCTGCAGCAGGAGAGAAAGCAGCCCAGCCTGAGCCTGCAGAGGGCGCAACAGACGAGGGCACCAGCGACAGCACGGCTCCATCTGAGAGCAGCTCCGGACCCCCAGCAGAACACCAGACCGCATCAGACAACACCCCTGAGGAGCGCCTGCCCACCCAGCCACAATaa
>TCONS_00050336
ATGCCCACCACCCCTGGGTTTGTGGGGTACAACCCATACAGCCATCTGGCCTACAACAACTACAGGCTGGGAGGGAACCCCAGCGGGAACAACAGGAACTCCTCAGGGATCACTGTTCCTAAGCCGCCCAAACCGCCCGACAAGCCGCTGATGCCCTACATGCGGTATAGCCGGAAGGTAAGCAGGAAGGTTTGGGACCAAGTTAAAGCCTCTAATCCTGACCTGAAGCTATGGGAGATTGGCAAGATCATTGGTGGCATGTGGAGGGACCTCACCGATGAGGAAAAACAGGACTATTTAAATGAATATGAGGCAGAAAAGATTGAGTATAATGACTCTCTGAAGGCCTACCACAACTCTCCAGCCTACCTTGCGTACGTTAATGCAAAGAACCGCGCAGAAGCAGCTCTAGAGGAAGAAAGCCGGCAGAGACAGTCACGTTTAGACAAAGGGGAGCCCTACATGAGCATCCAACCCGCTGAGGACCCCGATGACTATGACGACGGGTTCTCCATGAAGCACACAGCGGCAGCTCGTTTCCAGCGGAATCACCGGCTAATCAGTGACATTCTGAGTGAGGTGGTGGTGCCTGATGTTCGCTCGGTCGTGACCACCGCTCGCATGCAGGTCCTCAAGCGCCAGGTCCAGTCCCTCATGGTGCACCAGCGAAAACTGGAGGCCGAGCTGCTTCAAATCGAGGACCGGCATCAGGAGAAGAAGAGGAGATTCCTGGAGAGCACAGACTCCTTCAATAACGAGCTCAAACGGCTCTGCGGTCTGAAAGTGGAGGTGGACATGGAGAAGCTGGCAGCTGAAATGGCTGCTGCAGAAGAGGCGGCTCGCCGGAGGGCGGAGGAGAGAGAGCGGGAAGCAGCGGAGCAGGTGGAGCGAGCCGCTCAAGAAGAGCAACAGCCCGCCAGCGCCCAGGCCAATGCCAACACAGAGCAGACCTCTGCCAGCGAGACCAAGGATGGAGAAGACAAGCCCACCCCGATGGAGACAGAGTCTCTTGCTGAAACTTCTGAAGGATCTCAGGAGGCTGAGCAAGGCACACCTGCAGCAGGAGAGAAAGCAGCCCAGCCTGAGCCTGCAGAGGGCGCAACAGACGAGGGCACCAGCGACAGCACGGCTCCATCTGAGAGCAGCTCCGGACCCCCAGCAGAACACCAGACCGCATCAGACAACACCCCTGAGGAGCGCCTGCCCACCCAGCCACAATaacacatccacacactctcacctCGCTCTGCGTAGAGTCATGTGTCCTCTAGGATTTACCGGTTAATCCTGTGACCTGGCAGTGCATGAGAGTGAGAACAGTGAAAATTACTTTTCTCCCCCTCATAATCATCTACAGTGACAATGACAGCAAATTCTTAATTGCCGTTTCACAGAGATTCACCTGTTCACTTGAACTGAAGCCTGATGTTACAAGCCCCCTTCAGTCATCTTAAGCTTTATGGCCATTTAAACGTCATTTTATCTTTTTAAAGCAGAAATAAATTAAGCAGATGTTGtgtaaaatgtaactttttcatCTTGTAGACACCAAATGGGTTGCGAAAGCAGAACGGCAAGGTTATTTGCTGTTGCCTTACCATTTATCTACCTGTGGCATGGCCATTTTATGCTGTATCTTTGTTTCTGATATTTTTTTCACTATTTAGTTGAGTAGTTTGTGGATTTAGTGCTTCTCTTTCTCTCACTTTATTCAAGATTTCTTTTgtacatttttccaaaataaagcCATGCTAACATTTCATAATTTTTCATCGCAACAGATTGACCATCCAGAGCAGAGGGACACTGTTCTGCTGGTGTCTTCATGGAATGGTATTATATTAAGCCTCTGGATTattgtgtttttgtattgttgGAAGGTATTCCCTCAATAAAGTGATTTCTATGTCTGTTTTAAAAATCTGGTCTTTTCCTTTAATCTGTCTAATACATTTAGTTATATTATAGTACatttagttatatttattaaataat

Function

symbol description
smarce1 Predicted to enable nuclear receptor binding activity. Acts upstream of or within endocardium morphogenesis. Predicted to be located in nucleus. Predicted to be part of SWI/SNF complex. Human ortholog(s) of this gene implicated in familial meningioma. Orthologous to human SMARCE1 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1).

GO:

id name namespace
GO:0043044 ATP-dependent chromatin remodeling biological_process
GO:0003160 endocardium morphogenesis biological_process
GO:0045892 negative regulation of transcription, DNA-templated biological_process
GO:0016514 SWI/SNF complex cellular_component
GO:0005634 nucleus cellular_component
GO:0003677 DNA binding molecular_function
GO:0016922 nuclear receptor binding molecular_function

KEGG:

id description
ko04714 Thermogenesis
ko05225 Hepatocellular carcinoma
ko03021 Transcription machinery
ko03036 Chromosome and associated proteins

ZFIN:

id description
ZDB-GENE-030131-967 Predicted to enable nuclear receptor binding activity. Acts upstream of or within endocardium morphogenesis. Predicted to be located in nucleus. Predicted to be part of SWI/SNF complex. Human ortholog(s) of this gene implicated in familial meningioma. Orthologous to human SMARCE1 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1).

Ensembl:

ensembl_id ENSDARG00000016871

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00050334 False 2072 mRNA 0.50 11 34985895 34994988
TCONS_00050335 False 1263 mRNA 0.58 10 34986837 34994288
TCONS_00050336 True 1995 mRNA 0.49 8 34988670 34995062

Neighbor

gene id symbol gene type direction distance location
XLOC_025542 ca10b coding upstream 4222 34919810 ~ 34981673 (+)
XLOC_025540 itga3a coding upstream 68854 34846201 ~ 34917041 (+)
XLOC_025541 BX890565.1 coding upstream 75496 34910280 ~ 34910399 (+)
XLOC_025539 cdk5r1a coding upstream 163575 34821327 ~ 34822320 (+)
XLOC_025538 NA coding upstream 252777 34732869 ~ 34733118 (+)
XLOC_025544 prkcbb coding downstream 10000 35005062 ~ 35266060 (+)
XLOC_025545 cacng3b coding downstream 303016 35298078 ~ 35375978 (+)
XLOC_025546 rbbp6 coding downstream 411333 35406395 ~ 35421194 (+)
XLOC_025547 NA coding downstream 444848 35439910 ~ 35489947 (+)
XLOC_025548 tnrc6a coding downstream 500508 35495570 ~ 35533366 (+)
XLOC_025429 BX649540.1 misc upstream 4736859 30248739 ~ 30249036 (+)
XLOC_025535 BX470190.1 non-coding upstream 626563 34359215 ~ 34359332 (+)
XLOC_025534 NA non-coding upstream 731949 34253557 ~ 34253946 (+)
XLOC_025533 NA non-coding upstream 735652 34249182 ~ 34250243 (+)
XLOC_025550 NA non-coding downstream 572440 35567502 ~ 35570748 (+)
XLOC_025552 BX572621.1 non-coding downstream 748122 35743184 ~ 35743256 (+)
XLOC_025553 NA non-coding downstream 754779 35749841 ~ 35750233 (+)
XLOC_025555 NA non-coding downstream 963616 35958678 ~ 35965512 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000046_05837676_05841480 SMARCE1 coding CI01000046 null 5837676 ~ 5841825 (+)