RNA id: TCONS_00051645


Basic Information

Item Value
RNA id TCONS_00051645
length 609
lncRNA type retained_intron
GC content 0.49
exon number 2
gene id XLOC_026498
representative False

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 33065613 ~ 33259621 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

AGAGCGTGGACGTTGTGGGACTGACCCCTAGCCCGAACCCGTTTTTAAGCATGGATTACTACCACCAGAACCGCGGCTGTTTGATCCCGGATAAAGGCCTCGTGTCGGGAGCGGCCCGCGGGTTCAGGAACCCTCACTGGAGCGGCTCGAATCACTCTGTGGAGACCCAGAGCACAAGCTCAGAGGAGATCGTACCCAGCCCTCCTTCACCGCCACCTCCACCACGGGTCTACAAGCCCTGTTTTGTCTGCCAGGACAAGTCCTCGGGCTACCACTATGGAGTCAGCGCATGTGAAGGGTGTAAGGTAAGGCCACGCTTCCAACTGATATTGACATTTCAGTGGTCTGATCGGCAGTGCTTTGCTGATCATATTACTGTGTACACCTTATATTAACATGGGTTCATATGCATCTCTTGTTTAGATTATCAAGACTAGGCTTCTGCCAGTTTTCCTTGTTGTGATTATTTGGTGATTATTGGCACTTTTATGATGATAAacagtatccgcttgttaagtgtgacatcacgcaAAGTGGCTTCAGTGTCCAAGCGCGCTATCAAACTGTATGGTGGAGACTcaacaaatagtaataataactgtTTACAAA

Function

GO:

id name namespace
GO:0007507 heart development biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0030154 cell differentiation biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0001889 liver development biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0048384 retinoic acid receptor signaling pathway biological_process
GO:0009755 hormone-mediated signaling pathway biological_process
GO:0033339 pectoral fin development biological_process
GO:0030917 midbrain-hindbrain boundary development biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0004879 nuclear receptor activity molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function
GO:0003707 steroid hormone receptor activity molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-980526-72 Enables DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in negative regulation of transcription by RNA polymerase II and pectoral fin development. Acts upstream of or within liver development; midbrain-hindbrain boundary development; and secondary heart field specification. Predicted to be located in nucleus. Is expressed in several structures, including endoderm; hindbrain neural keel; mesoderm; nervous system; and neural plate. Human ortholog(s) of this gene implicated in acute promyelocytic leukemia; lung carcinoma (multiple); and syndromic microphthalmia 12. Orthologous to several human genes including RARA (retinoic acid receptor alpha).

Ensembl:

ensembl_id ENSDART00000151554

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00051626 lncRNA downstream 158491 32924539 ~ 32925497 (-) False XLOC_026492
TCONS_00053063 lncRNA downstream 224641 32855161 ~ 32859347 (-) True XLOC_026488
TCONS_00051608 lncRNA downstream 480797 32598644 ~ 32603191 (-) True XLOC_026483
TCONS_00051605 lncRNA downstream 511936 32565194 ~ 32572052 (-) False XLOC_026481
TCONS_00053062 lncRNA downstream 512129 32565194 ~ 32571859 (-) False XLOC_026481
TCONS_00053064 lncRNA upstream 186511 33300194 ~ 33301311 (-) False XLOC_026499
TCONS_00051647 lncRNA upstream 186735 33300418 ~ 33304123 (-) True XLOC_026499
TCONS_00051648 lncRNA upstream 230393 33344076 ~ 33345247 (-) True XLOC_026500
TCONS_00051651 lncRNA upstream 283022 33396705 ~ 33398537 (-) True XLOC_026502
TCONS_00051653 lncRNA upstream 306536 33420219 ~ 33422734 (-) True XLOC_026503
TCONS_00051641 mRNA downstream 52189 33005024 ~ 33031799 (-) False XLOC_026497
TCONS_00051637 mRNA downstream 53261 32979969 ~ 33030727 (-) False XLOC_026497
TCONS_00051639 mRNA downstream 53261 32993447 ~ 33030727 (-) False XLOC_026497
TCONS_00051640 mRNA downstream 54050 33004453 ~ 33029938 (-) False XLOC_026497
TCONS_00051642 mRNA downstream 54562 33006186 ~ 33029426 (-) True XLOC_026497
TCONS_00051649 mRNA upstream 275340 33389023 ~ 33395233 (-) True XLOC_026501
TCONS_00051650 mRNA upstream 282259 33395942 ~ 33417826 (-) False XLOC_026502
TCONS_00051652 mRNA upstream 306531 33420214 ~ 33422738 (-) False XLOC_026503
TCONS_00051654 mRNA upstream 310303 33423986 ~ 33427803 (-) False XLOC_026504
TCONS_00051658 mRNA upstream 318508 33432191 ~ 33437796 (-) False XLOC_026506
TCONS_00051635 other downstream 110454 32972974 ~ 32973534 (-) True XLOC_026495
TCONS_00051585 other downstream 896603 32186134 ~ 32187385 (-) False XLOC_026474
TCONS_00051529 other downstream 2283330 30800541 ~ 30800658 (-) True XLOC_026441
TCONS_00051520 other downstream 2595894 30454353 ~ 30488094 (-) False XLOC_026436
TCONS_00051482 other downstream 3213864 29868899 ~ 29870124 (-) True XLOC_026416
TCONS_00051656 other upstream 310509 33424192 ~ 33424328 (-) True XLOC_026505
TCONS_00051678 other upstream 834986 33948669 ~ 33948788 (-) True XLOC_026513
TCONS_00051702 other upstream 909482 34023165 ~ 34023613 (-) True XLOC_026529
TCONS_00051708 other upstream 921509 34035192 ~ 34035631 (-) True XLOC_026534
TCONS_00051712 other upstream 923798 34037481 ~ 34037881 (-) True XLOC_026535

Expression Profile

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