RNA id: TCONS_00020406


Basic Information

Item Value
RNA id TCONS_00020406
length 938
lncRNA type retained_intron
GC content 0.57
exon number 4
gene id XLOC_010365
representative True

Chromosome Information

Item Value
chromosome id NC_007127.7
NCBI id CM002900.2
chromosome length 55266484
location 378766 ~ 383664 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TCTGCGCGGTAATTCGGGGCTTCCCTCTGCGCTTATCAGTTTACAAATCTACGAGCACCGACACAGAGGCGACGGCTGGGGGAAGGAGGACAACAGTTGTTTTGTTGGCCACGATCCATGTAGTGTCCTGCGGGGGCGGACTGTGCCAAAAATCAACTTTCACTGCGTGTTTTGGAGCTTTTTAAAGTCGGGTttctgtgtgtgttcatgctgTGATTTCTCCTGATTGTTCCAGTTCCTCATGACCACCAACTCTCTGACATCTTGCTGCGAGTCGAGCACCAGATCCATCCCGGACTCATCGGCGCAGACCCCCGTGTACTGCCCGGTGTACGAGAGCCGGCTGTTGGCCACCGCCAGACACGAGCTCAGCTCCGCCGCCGCGCTCGGGGTCTACGGCAGCCCGTACACCGGCGGACAAGGCTACGGGAATTACGTGACCTACGGAGCTGACGCATCGGCGTTCTACTCTTTGGGAACATTTGACGCCAAAGATGGAAGCGCGTCTGCGCATGCGGGGATAACACCGGCTGCCGCATATTACCCATACGATCCCACCCTGGGACAGTACCAGTATGACAGGTACGGCTCTATGGAGGGCGGGACCCGCAGGAAAAACGCCACCCGGGAGACCACGAGCACGCTGAAGGCCTGGCTGCAGGAGCACCGGAAAAACCCCTACCCGACCAAAGGAGAGAAGATCATGCTGGCCATCATCACCAAGATGACCCTCACTCAGGTGTCCACCTGGTTCGCCAACGCCAGAAGGAGACTCAAGAAGGAGAACAAGATGACCTGGCCACCGAGGAACAAGGGCTCGGACGAGAAGaagtatgatgatgatgaggatggaTCACCAGAGGAGCAGATCAAGAGTGAAACCAATGATGACGAGAGCAAAGATCGAGAGGACAAGGATCTGCAGCTGAGCGACCTGG

Function

GO:

id name namespace
GO:0048468 cell development biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0042461 photoreceptor cell development biological_process
GO:0030182 neuron differentiation biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0048923 posterior lateral line neuromast hair cell differentiation biological_process
GO:0048924 posterior lateral line neuromast mantle cell differentiation 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-040426-1825 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 photoreceptor cell development; posterior lateral line neuromast hair cell differentiation; and posterior lateral line neuromast mantle cell differentiation. Predicted to be active in nucleus. Is expressed in several structures, including midbrain neural keel; nervous system; neural plate; pericardial region; and presumptive neural retina. Orthologous to human IRX4 (iroquois homeobox 4).

Ensembl:

ensembl_id ENSDART00000148951

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00022072 lncRNA downstream 12665 354846 ~ 367144 (-) False XLOC_010364
TCONS_00022071 lncRNA downstream 12894 354846 ~ 366915 (-) False XLOC_010364
TCONS_00022073 lncRNA downstream 12894 363724 ~ 366915 (-) True XLOC_010364
TCONS_00022070 lncRNA downstream 14410 354846 ~ 365399 (-) False XLOC_010364
TCONS_00022069 lncRNA downstream 26029 346263 ~ 353780 (-) True XLOC_010363
TCONS_00021775 lncRNA upstream 168414 551682 ~ 552627 (-) True XLOC_010366
TCONS_00020410 lncRNA upstream 177444 560712 ~ 562186 (-) True XLOC_010367
TCONS_00021776 lncRNA upstream 820874 1204142 ~ 1218565 (-) False XLOC_010368
TCONS_00021777 lncRNA upstream 821710 1204978 ~ 1218570 (-) True XLOC_010368
TCONS_00022074 lncRNA upstream 967703 1350971 ~ 1353006 (-) True XLOC_010369
TCONS_00020404 mRNA downstream 98974 277789 ~ 280835 (-) True XLOC_010361
TCONS_00020403 mRNA downstream 99554 277789 ~ 280255 (-) False XLOC_010361
TCONS_00020402 mRNA downstream 116151 248239 ~ 263658 (-) True XLOC_010360
TCONS_00020407 mRNA upstream 172478 555746 ~ 563732 (-) False XLOC_010367
TCONS_00020408 mRNA upstream 175420 558688 ~ 563235 (-) False XLOC_010367
TCONS_00020409 mRNA upstream 176401 559669 ~ 560574 (-) False XLOC_010367
TCONS_00020411 mRNA upstream 1082356 1465624 ~ 1502699 (-) False XLOC_010370
TCONS_00020412 mRNA upstream 1087150 1470418 ~ 1503023 (-) True XLOC_010370
TCONS_00020422 other upstream 2255091 2638359 ~ 2641494 (-) False XLOC_010377
TCONS_00020424 other upstream 2352408 2735676 ~ 2735799 (-) True XLOC_010378
TCONS_00020433 other upstream 3827209 4210477 ~ 4211935 (-) True XLOC_010390
TCONS_00020438 other upstream 4144213 4527481 ~ 4527647 (-) True XLOC_010394
TCONS_00020445 other upstream 4232393 4615661 ~ 4619765 (-) False XLOC_010398

Expression Profile

//