RNA id: TCONS_00020408


Basic Information

Item Value
RNA id TCONS_00020408
length 2295
RNA type mRNA
GC content 0.50
exon number 5
gene id XLOC_010367
representative False

Chromosome Information

Item Value
chromosome id NC_007127.7
NCBI id CM002900.2
chromosome length 55266484
location 555746 ~ 563732 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CTCCTTCCAGCAACTCTTCACTCTCCACTCCCGAGCACTACAAACAAACGGACGCTAGGGGATCTCCATGACGGCTCTCTGCTGAACGCTCCTCTCGTGcgcgtttatttattttattttattagttcgCGTCCGGTGCGTCAATGCGCTGATTCCATCGATCAGCCCGATTTCGCGTTGTGGAGAGAAGCTGAGTAATAATGTCCTATCCTCAGGGTTACCTCTACCAGCCCCCGGGCTCTCTGGCGCTTTACTCGTGTCCGCTGGCCGCCCCGAGGAGCGAGGATTTGGCCCGGTCATCCTCCGGTTCCGCGTTCAGCCCGTACCCCGGGTCGGCGGCGTTCACAGCCTCCGCCAACGGATTCTCCAGCCCGCTGCCCTACTCCACAGATCCGGCCACGGGATTCCCGTCCTACATGGGCTCTCCGTATGACGCGCACACTACGGGAATGGCAGGAGCCATAAGTTATCACCCGTACGGGAGTCCCGGTTACCCGTACCAGCTCAACGATCCCGCTTACCGGAAAAACGCCACTCGGGACGCAACAGCGACGTTAAAAGCGTGGCTGCAGGAGCACAGGAAAAACCCCTATCCCACTAAAGGAGAGAAGATCATGCTGGCCATCATCACCAAAATGACCCTCACGCAAGTGTCCACCTGGTTCGCCAATGCACGACGGAGACTCAAGAAGGAGAACAAGATGACCTGGGCACCGCGGAATAAAAGTGAAGACGAAGACGAAGATGACGGAGATGGAGAGAGAAAAGACGAGCGCACGGATAAAAACATGGACAACAGCGAAGCGTCAGCTGAGGACGAAGGCATCAGTTTGCACGTCGATGCCCTGACAGACCACTCGTGCTCGGTGGAGTCGGACGGGGAGAAGGTCACGTGTCGGACCGGAGACCTTGTTTGCGATTCTGGAGCTGAAATCCAGGACAAATGCGAGGCGACGGATCTCGGGGAGGAAAGGCAGCGAGGCGCGTCACCCAAACCGGTGACCTCTTCTCCTCTGACCGGGGTGGAGGCGCCTCTATTGACCCATCATCACCGGGAGAACAGCACCAACAAAACATGCCTGGACGGTCAAAACCAAACCGTCAAGCCTAAGCTGTGGTCATTAGCAGAGATCGCCACTTCGGACCCCAAGCAGCAGAACTGTCCCCCGGGTGTCGGCCTTCTGACCTCCAGCGCGCCCGGCGCGTCCCCGGCGGGCGCGGTTTACCCCGCCACCTCCATACTAGGAAGACCTCTTTATTACACTTCTCCGTTTTATAGTAATTACACAAACTATGGCAACTTCAGCCCGCTTCAGGGCCAGGGGATACTGCGCTACAACTCCGCCGCAGAGGGACTCCTTCATAAACAGACTGGAGAGCCGCTAATAAAGACTAATCCAAACCAGACTGAAGCTCACTTCAGGGCCTCCAATGCAGAATCCAAAAAAGACCCCAGCGAGGTTTTCACAGTAAGATCCCAATCTTACCTGTCGAGTTAAGACGAGGAAGATCTTCCAAGTAGGTGTCACAATTGCTTTGAACAAAGCGAACAAGCCATcaccccttctctctctctctctctctctctctctctctctctctctccctctctctctctctctctctctctctctctctctctctctctctctccccaagCTGTTTTAAACTAACATTTGCTCCTTATACGCGGATCCTCTTTTGTGTGCCACTGTACACCCACGGACTACAGAGCACCTGCCtatacaataacaacaacaacactgcgATTGCGGGACAGAAACGCAAAGACAAGACAGGACAAGAGAAAGAAGAGCGAGTTTATAAGGCACAATAGCCAGTCTGCTTTGGACGAACTGCTGATTTATTGATGAAGTACTTTATCCCAACACATGTGACTTTTCCATGAGGAAACTTATTTCTCAGGATCCTAATAGTAGCTTCATTGCCACCAGTTGTAAACACGCGTgggacatttattattattaattattattattatagacctCCTATGAGACTTTATATGTGCTATAGAGGTGTGAAGTGTAAATGAGATCTCGGGACTGGTATAAACTTGACTAAGAGTGGAAtacatttgatatttatttttgtaatgccTATAATTTATGCAAGTTGTATTGCAATGGTTGCTGAacattgttttgtaaataaattatgatgggtttttattttaaaaaagccgAAGTTACACAATGTTGTTAACAAGGAGACTTTTACTAATTTATATCTCTCGTTGTAAATAAAAATGCGCTAGTCTGCACTGGCACAACACTG

Function

GO:

id name namespace
GO:0048468 cell development biological_process
GO:0035778 pronephric nephron tubule epithelial cell differentiation biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0030182 neuron differentiation biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0060042 retina morphogenesis in camera-type eye biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0001227 DNA-binding transcription repressor activity, RNA polymerase II-specific molecular_function
GO:0003677 DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-040426-1446 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within pronephric nephron tubule epithelial cell differentiation and retina morphogenesis in camera-type eye. Predicted to be active in nucleus. Is expressed in several structures, including basal plate midbrain region; nervous system; otic vesicle; pectoral fin bud; and pronephric tubule. Orthologous to human IRX2 (iroquois homeobox 2).

Ensembl:

ensembl_id ENSDART00000016303

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00021775 lncRNA downstream 6061 551682 ~ 552627 (-) True XLOC_010366
TCONS_00020406 lncRNA downstream 175420 379809 ~ 383268 (-) True XLOC_010365
TCONS_00022072 lncRNA downstream 191544 354846 ~ 367144 (-) False XLOC_010364
TCONS_00022071 lncRNA downstream 191773 354846 ~ 366915 (-) False XLOC_010364
TCONS_00021776 lncRNA upstream 640907 1204142 ~ 1218565 (-) False XLOC_010368
TCONS_00021777 lncRNA upstream 641743 1204978 ~ 1218570 (-) True XLOC_010368
TCONS_00022074 lncRNA upstream 787736 1350971 ~ 1353006 (-) True XLOC_010369
TCONS_00021778 lncRNA upstream 1384790 1948025 ~ 1949069 (-) True XLOC_010372
TCONS_00020423 lncRNA upstream 2084278 2647513 ~ 2650375 (-) True XLOC_010377
TCONS_00020405 mRNA downstream 175024 378766 ~ 383664 (-) False XLOC_010365
TCONS_00020404 mRNA downstream 277853 277789 ~ 280835 (-) True XLOC_010361
TCONS_00020403 mRNA downstream 278433 277789 ~ 280255 (-) False XLOC_010361
TCONS_00020402 mRNA downstream 295030 248239 ~ 263658 (-) True XLOC_010360
TCONS_00020411 mRNA upstream 902389 1465624 ~ 1502699 (-) False XLOC_010370
TCONS_00020412 mRNA upstream 907183 1470418 ~ 1503023 (-) True XLOC_010370
TCONS_00020413 mRNA upstream 941045 1504280 ~ 1757521 (-) False XLOC_010371
TCONS_00020414 mRNA upstream 1055159 1618394 ~ 1709328 (-) True XLOC_010371
TCONS_00020415 mRNA upstream 1788285 2351520 ~ 2390931 (-) True XLOC_010373
TCONS_00020422 other upstream 2075124 2638359 ~ 2641494 (-) False XLOC_010377
TCONS_00020424 other upstream 2172441 2735676 ~ 2735799 (-) True XLOC_010378
TCONS_00020433 other upstream 3647242 4210477 ~ 4211935 (-) True XLOC_010390
TCONS_00020438 other upstream 3964246 4527481 ~ 4527647 (-) True XLOC_010394
TCONS_00020445 other upstream 4052426 4615661 ~ 4619765 (-) False XLOC_010398

Expression Profile

//