RNA id: TCONS_00049620


Basic Information

Item Value
RNA id TCONS_00049620
length 2141
RNA type mRNA
GC content 0.46
exon number 5
gene id XLOC_025087
representative False

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 10152092 ~ 10164759 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TTTCCCTCTCACACACGCACTCGCAGTGACTGAGAAGGCGATGAGAATGAGATGAGAACAGCCATGGAGGAGCTGAGCGCGGTAGGAGAGCAGGTCTTCGACGCCGAGTGTATCCTCAACAAACGCACGAGGAAGGGCAAACTGGAGTATCTGGTCAAGTGGAGAGGATGGTCGTCCAAGCATAACAGTTGGGAACCTCAGGAAAACCTTCTTGACCCGAGACTATTGGTTGCATTTAACAAGAGGGAGCAGGAGAAGGAACTCTTGATAAGCAAAAAGGGGAAACGGCCTCGTGGACGACCCAGAAAAATAATGGAAACTATTCCAGTGGTGTCAAAGTCAAGCAGCTCATCCTCGTCTTCATCCTCTTCTGGTTCTTCGTCATCTTCCTCATCATCATCCTCTTCTACAGATGACGACGATGAAGACGACCACAACATGACTCCAAAGCCGATTCCTCGTCCTCGAGAGCATCTCCCGGTCCCGCAGAAGAAAGCGCAGATCGTCGTGGCCAAGCCAGGGCCGCCAAAGAAGCGAGGGAGGAAAGCGCTGCCTCCGGAGCTGAAGGCCATACGTCAAGTTAAAGGTACTCGGAAGATCCTCAAACCCATTTCCAGAGACTCGGATCTCCGAGGCATAAAGAAACCTCTCATGCCTGCAAGCTTCACCTACACCGGCTTGAATCGCACCTCAGGAAGGGAGCCGATGGCAATGCATAACCGAGGGTCTTTTACACACAAGAGTTCCTTAAGCTCCCTTGGACGCTCCATCGGATCCGTTTCATCTTCTCCAACACTAAATCGGTCGCCGCAAACTAAATCTGCTTCAGATTTCAAGCTCTCCGTCTCAGATATGAACAGCGGACTTGATCCCAAGACTCCCACGTGCAAATCTCCAGGTGTAGCCGCACTGAATCTGCACAGCAGCAATGGACAGACGTGTCCACAACTCTCTCCCACTGTGCCGAAAGATCAGACCCTGCTTCAAAGGTCAGCATCTCTCCCGAAATCCCCATCAAGCTCATTTTCATCTCTCAAAACTCCTTCCAGCCTTCAAGCTCTCAATCTGCAGAGCGTCAACAAAACAGTGCAGGGAAACGGGACTGATTTGAAGACTTCCCCGCATTCTGGAAGGAAAAGTTCTGGATTTAACACAAGTTCTGCACCAAACACTCCTAGCAAGTTCCAGACCTCACAGCAAGCCTTAAAGAGTCCACAGAAATTGAAAGCGGATGATTTGGCTGAAAGACTTGGGAAGAAAAGCCAAGCTAGAACAGAAAAGATTCTGCCAACAGAGGGTCGAGATTCTCAACCGGCGCAAGACAGACCCTCGTCTAAAGATCCCAGCAAACAGAGCAAGACCTTGAGCGAATTGAGCACCGGAGAGGAGGGAAGCAGCTCCGATACCGACCATGATTCCTCATTTCCCAGGGACAGCCATGACTTGTCCATCTCTGTGCAAGCAGGTCAGGATTGGAGGCCGACACGGAGCCTGATTGAGCATGTGTTTGTCACTGACGTCACTGCAAACCTGGTCACAGTAACAGTGAAGGAATCTCCAACCAGCGTTGGGTTTTTTAGCATTCGGAATTATTGAATGTCTTCAACTGGAAGTGCAGCTACATTTGGATAATCGGGAcaagtttcaagcaagctgtttGATGGGTCTCCATTTTTTAATGgattttacttgtttttactcAAAGTTGGGACTGTTTTACCTGGTCAGATTTGAAGTTCCTTGACACGTTTTTAATCAGACATGTACAATCTCGCCTAATTTGAAGTCTAAAGTGTATTTCTGAAGCGTTCGCCTTGGTTTCAAATGCAGGGATGGTTTTCTTGAAGTTGATTCTGAGTACAGTACTAGTAAAGACAAAATTCACAAGATCAAAACAAATATATCCAAAgttttttttagctgaatctcAGATTGTGTCTTTTAAAAAGGTGCCTATTTTTAAGCTGTCGTTTTTCTGCTCAATAACCAATATAATGagggtttttttctttttgttttactatGATGTGGGTATATTTTGTACTACACAACAgttcactgtttatttattatttcttactGTTATTTTTGTTGGTAGGTGACATGCTGAAACACACAGTAAAGATTCTTTTTATACAAAA

Function

GO:

id name namespace
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0000792 heterochromatin cellular_component
GO:0035102 PRC1 complex cellular_component
GO:0005634 nucleus cellular_component
GO:0035064 methylated histone binding molecular_function

KEGG:

id description
ko03036 Chromosome and associated proteins

ZFIN:

id description
ZDB-GENE-030131-5502 Predicted to enable methylated histone binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be part of PRC1 complex. Predicted to be active in heterochromatin. Is expressed in several structures, including digestive system; heart; nervous system; pectoral fin bud; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in 46,XY sex reversal 5. Orthologous to human CBX2 (chromobox 2).

Ensembl:

ensembl_id ENSDART00000066053

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00052595 lncRNA upstream 426710 9723796 ~ 9725382 (+) True XLOC_025086
TCONS_00052594 lncRNA upstream 1119080 9032205 ~ 9033012 (+) True XLOC_025071
TCONS_00052325 lncRNA upstream 1171877 8978736 ~ 8980215 (+) True XLOC_025068
TCONS_00052324 lncRNA upstream 1173403 8978232 ~ 8978689 (+) True XLOC_025067
TCONS_00052323 lncRNA upstream 1276262 8874956 ~ 8875830 (+) True XLOC_025066
TCONS_00052596 lncRNA downstream 15132 10179891 ~ 10231275 (+) True XLOC_025088
TCONS_00052597 lncRNA downstream 581641 10746400 ~ 10749345 (+) True XLOC_025090
TCONS_00052598 lncRNA downstream 768727 10933486 ~ 10938406 (+) False XLOC_025091
TCONS_00052599 lncRNA downstream 771430 10936189 ~ 10938406 (+) True XLOC_025091
TCONS_00052600 lncRNA downstream 778368 10943127 ~ 10993976 (+) False XLOC_025092
TCONS_00049618 mRNA upstream 525418 9588705 ~ 9626674 (+) False XLOC_025085
TCONS_00049619 mRNA upstream 526188 9588728 ~ 9625904 (+) True XLOC_025085
TCONS_00049617 mRNA upstream 729644 9379877 ~ 9422448 (+) True XLOC_025084
TCONS_00049616 mRNA upstream 809319 9332984 ~ 9342773 (+) False XLOC_025083
TCONS_00049615 mRNA upstream 809319 9332984 ~ 9342773 (+) True XLOC_025083
TCONS_00049622 mRNA downstream 472571 10637330 ~ 10641880 (+) True XLOC_025089
TCONS_00049623 mRNA downstream 908199 11072958 ~ 11075476 (+) True XLOC_025095
TCONS_00049624 mRNA downstream 936826 11101585 ~ 11122914 (+) True XLOC_025096
TCONS_00049625 mRNA downstream 1383757 11548516 ~ 11576337 (+) True XLOC_025100
TCONS_00049626 mRNA downstream 1403764 11568523 ~ 11587609 (+) True XLOC_025101
TCONS_00049609 other upstream 1109997 9041989 ~ 9042095 (+) True XLOC_025081
TCONS_00049608 other upstream 1110524 9041462 ~ 9041568 (+) True XLOC_025080
TCONS_00049607 other upstream 1111039 9040947 ~ 9041053 (+) True XLOC_025079
TCONS_00049606 other upstream 1111569 9040417 ~ 9040523 (+) True XLOC_025078
TCONS_00049605 other upstream 1112099 9039887 ~ 9039993 (+) True XLOC_025077
TCONS_00049628 other downstream 1778790 11943549 ~ 11946957 (+) True XLOC_025104
TCONS_00049660 other downstream 3241467 13406226 ~ 13406323 (+) True XLOC_025130
TCONS_00049661 other downstream 3241692 13406451 ~ 13406538 (+) False XLOC_025131
TCONS_00049675 other downstream 3683467 13848226 ~ 13857716 (+) False XLOC_025143
TCONS_00049684 other downstream 4079907 14244666 ~ 14244784 (+) True XLOC_025148

Expression Profile

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