RNA id: TCONS_00050334


Basic Information

Item Value
RNA id TCONS_00050334
length 2072
RNA type mRNA
GC content 0.50
exon number 11
gene id XLOC_025543
representative False

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
species zebrafish
(Danio rerio)

Sequence

AGATGCTGCTCAAAATGTGTCACATCCTGGCGGAGCACCATTGAGGGAACAAAGGAGCTGGGGAACCAAATGATGGGGATAGCGTGATATCCTCAACCCTACAATCAAGATGTCAAAGCGGCCCCCCTATGCCCCTGCCCCCACCCCGGCCCCCACAACACAAATGCCCACCACCCCTGGGTTTGTGGGGTACAACCCATACAGCCATCTGGCCTACAACAACTACAGGCTGGGAGGGAACCCCAGCGGGAACAACAGGAACTCCTCAGGGATCACTGTTCCTAAGCCGCCCAAACCGCCCGACAAGCCGCTGATGCCCTACATGCGGTATAGCCGGAAGGTTTGGGACCAAGTTAAAGCCTCTAATCCTGACCTGAAGCTATGGGAGATTGGCAAGATCATTGGTGGCATGTGGAGGGACCTCACCGATGAGGAAAAACAGGACTATTTAAATGAATATGAGGCAGAAAAGATTGAGTATAATGACTCTCTGAAGGCCTACCACAACTCTCCAGCCTACCTTGCGTACGTTAATGCAAAGAACCGCGCAGAAGCAGCTCTAGAGGAAGAAAGCCGGCAGAGACAGTCACGTTTAGACAAAGGGGAGCCCTACATGAGCATCCAACCCGCTGAGGACCCCGATGACTATGACGACGGGTTCTCCATGAAGCACACAGCGGCAGCTCGTTTCCAGCGGAATCACCGGCTAATCAGTGACATTCTGAGTGAGGTGGTGGTGCCTGATGTTCGCTCGGTCGTGACCACCGCTCGCATGCAGGTCCTCAAGCGCCAGGTCCAGTCCCTCATGGTGCACCAGCGAAAACTGGAGGCCGAGCTGCTTCAAATCGAGGACCGGCATCAGGAGAAGAAGAGGAGATTCCTGGAGAGCACAGACTCCTTCAATAACGAGCTCAAACGGCTCTGCGGTCTGAAAGTGGAGGTGGACATGGAGAAGCTGGCAGCTGAAATGGCTGCTGCAGAAGAGGCGGCTCGCCGGAGGGCGGAGGAGAGAGAGCGGGAAGCAGCGGAGCAGGTGGAGCGAGCCGCTCAAGAAGAGCAACAGCCCGCCAGCGCCCAGGCCAATGCCAACACAGAGCAGACCTCTGCCAGCGAGACCAAGGATGGAGAAGACAAGCCCACCCCGATGGAGACAGAGTCTCTTGCTGAAACTTCTGAAGGATCTCAGGAGGCTGAGCAAGGCACACCTGCAGCAGGAGAGAAAGCAGCCCAGCCTGAGCCTGCAGAGGGCGCAACAGACGAGGGCACCAGCGACAGCACGGCTCCATCTGAGAGCAGCTCCGGACCCCCAGCAGAACACCAGACCGCATCAGACAACACCCCTGAGGAGCGCCTGCCCACCCAGCCACAATaacacatccacacactctcacctCGCTCTGCGTAGAGTCATGTGTCCTCTAGGATTTACCGGTTAATCCTGTGACCTGGCAGTGCATGAGAGTGAGAACAGTGAAAATTACTTTTCTCCCCCTCATAATCATCTACAGTGACAATGACAGCAAATTCTTAATTGCCGTTTCACAGAGATTCACCTGTTCACTTGAACTGAAGCCTGATGTTACAAGCCCCCTTCAGTCATCTTAAGCTTTATGGCCATTTAAACGTCATTTTATCTTTTTAAAGCAGAAATAAATTAAGCAGATGTTGtgtaaaatgtaactttttcatCTTGTAGACACCAAATGGGTTGCGAAAGCAGAACGGCAAGGTTATTTGCTGTTGCCTTACCATTTATCTACCTGTGGCATGGCCATTTTATGCTGTATCTTTGTTTCTGATATTTTTTTCACTATTTAGTTGAGTAGTTTGTGGATTTAGTGCTTCTCTTTCTCTCACTTTATTCAAGATTTCTTTTgtacatttttccaaaataaagcCATGCTAACATTTCATAATTTTTCATCGCAACAGATTGACCATCCAGAGCAGAGGGACACTGTTCTGCTGGTGTCTTCATGGAATGGTATTATATTAAGCCTCTGGATTattgtgtttttgtattgttgGAAGGTATTCCCTCAATAAAGTGATTTCTATGTCTGTTTTAAAAA

Function

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 ENSDART00000121981

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00052352 lncRNA upstream 252777 34732869 ~ 34733118 (+) True XLOC_025538
TCONS_00052736 lncRNA upstream 731949 34253557 ~ 34253946 (+) True XLOC_025534
TCONS_00052735 lncRNA upstream 735652 34249182 ~ 34250243 (+) True XLOC_025533
TCONS_00052733 lncRNA upstream 768671 34210893 ~ 34217224 (+) False XLOC_025530
TCONS_00052353 lncRNA downstream 444922 35439910 ~ 35489947 (+) True XLOC_025547
TCONS_00050344 lncRNA downstream 500703 35495691 ~ 35511996 (+) False XLOC_025548
TCONS_00050345 lncRNA downstream 500705 35495693 ~ 35498301 (+) False XLOC_025548
TCONS_00052354 lncRNA downstream 536089 35531077 ~ 35531511 (+) True XLOC_025548
TCONS_00052737 lncRNA downstream 572514 35567502 ~ 35570748 (+) True XLOC_025550
TCONS_00050333 mRNA upstream 4222 34919810 ~ 34981673 (+) True XLOC_025542
TCONS_00050330 mRNA upstream 68854 34846201 ~ 34917041 (+) False XLOC_025540
TCONS_00050331 mRNA upstream 74305 34877066 ~ 34911590 (+) True XLOC_025540
TCONS_00050329 mRNA upstream 163575 34821327 ~ 34822320 (+) True XLOC_025539
TCONS_00050328 mRNA upstream 297618 34683096 ~ 34688277 (+) True XLOC_025537
TCONS_00050337 mRNA downstream 10074 35005062 ~ 35266060 (+) False XLOC_025544
TCONS_00050338 mRNA downstream 10742 35005730 ~ 35250525 (+) True XLOC_025544
TCONS_00050339 mRNA downstream 303090 35298078 ~ 35375978 (+) True XLOC_025545
TCONS_00050340 mRNA downstream 411407 35406395 ~ 35408583 (+) False XLOC_025546
TCONS_00050341 mRNA downstream 411419 35406407 ~ 35421194 (+) False XLOC_025546
TCONS_00050332 other upstream 75496 34910280 ~ 34910399 (+) True XLOC_025541
TCONS_00050326 other upstream 626563 34359215 ~ 34359332 (+) True XLOC_025535
TCONS_00050323 other upstream 788124 34197694 ~ 34197771 (+) True XLOC_025529
TCONS_00050321 other upstream 814863 34161217 ~ 34171032 (+) True XLOC_025526
TCONS_00050319 other upstream 826823 34158875 ~ 34159072 (+) True XLOC_025527
TCONS_00050355 other downstream 748196 35743184 ~ 35743256 (+) True XLOC_025552
TCONS_00050357 other downstream 817068 35812056 ~ 35818407 (+) False XLOC_025554
TCONS_00050359 other downstream 817089 35812077 ~ 35831362 (+) True XLOC_025554
TCONS_00050360 other downstream 964924 35959912 ~ 35960010 (+) True XLOC_025556
TCONS_00050361 other downstream 966001 35960989 ~ 35961086 (+) True XLOC_025557

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
bowfin (Amia calva) AMCG00016637 True 2881 mRNA 0.53 13 CM030122.1 26559807 ~ 26572357 (+)