RNA id: TCONS_00000609


Basic Information

Item Value
RNA id TCONS_00000609
length 2248
RNA type mRNA
GC content 0.46
exon number 3
gene id XLOC_000356
representative True

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 29831759 ~ 29860895 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TTGGATACACGACGCACAGAGAACCTGCGCAACCGCTACTAAATCCAATTTGGCTCACCAATCGTACAGATGTACACATTTCGTACGTTTTCAAAGCTTTTCCATCGCATAAAAAGGATTTATTTGATTTGACTCAGTTCATCACGTGGCATGAgttttaattaacctaattacggGCAAGTAACAGCCACTCAGTTGCTCATAGCCATATAGctactttttttctatttaaacgcGGGTGTAGTGTCTTTACGCATTCTTTGGTCAAAAATCGTGGTGATGTTACTGGACGCCGGCCACCAGATTTCTGGTTTAGGGGTTGGCACGTTCACAAGGCATCACTCGGCTGTGAGCGAGACCCAGGACAGAGATATGAGTTTTATGGAATCGGCGCACATGGGCGCGTTCAAACTGAACCACCCCGATTTGTCCCCAGGCCAGAGCGCAGCTTTTGCGCCACAAGCAAGCAGCTATTCTGCGGCCGCTCTTGGAGCGCATGCGGCGGCGCACGCTGCCTCTTTCGCCAGCTCCACTTTTAACTCCACCAGGGAGTTCCTCTTGCGCAGCCGAGGATTTGGGGATTCGACTCCGGCCAGTGGACAACACCCCATCTTCAGCTCCACATCAGGGTCTCTCCATCACTCTCACCCAGAAGGTCAGGGTCACCTACTTTTCCCCGGAATCCACGAGCAGCACGGGTCCCATCACGGCTCTCCAAACATCCTGAATGGACGCCTTGGATTACCCGGTGAGGTTTTCGGGCGGACGGAGCAGTATCACCAGGTGCCCAATACGCGGGCCGATCCATACAGCCAATATGGCCTAAACATGAGTATGAACATGGCGCACCATCCAGGCGCGTTCTTCCGCTACATGCGACAACAGTGCATCAAACAAGAGCTTATTTGTAAGTGGATCGACCCCGAGCAGCTCGGTGACCCCAAAAAATGCTGCAGCAAAACTTTCAGCACCATGCACGAACTGGTCACGCATGTGTCCACTGAGCACGTTGGCGGGCCAGAACAGTGTAACCACATCTGCTTTTGGGAAGAATGTCCACGGGAGAGCAAACCATTCAAAGCAAAGTACAAATTAGTGAATCATATCCGAGTGCACACGGGAGAGAAACCCTTCGCGTGCCCATTCCCGGGATGTGGCAAGGTGTTCGCGCGTTCGGAGAATTTGAAAATACACAAACGGACACACACTGGAGAAAAACCGTTCCTGTGTGAATTCGAAGGCTGCGACAGACGCTTCGCCAACAGCAGTGACCGGAAGAAGCACATGCACGTTCACACGTCTGACAAGCCATATCTGTGCAAACTCTGCGACAAGTCCTACACACACCCCAGCTCCTTGAGAAAACACATGAAGGTTCACGAGGATCAGGCTCCAATAGCGGACTCCTCTCCTGCTGGAAGCTCCGGGTACGAGTCCTCCACTCCGTCCAGTCTGATCTCTCCATGCTCGGAGACGCACAGCACCTTGTCGCCTGATTCTGCCGCGCTCAACAGCAGCGGGCACAATAGCTTAACGTCCAATTTTAACGAGTGGTACGTTTAAGGACTCCGCCAAGAACTGCatatcctaaaataaaatattatttgtaaatagcaaatgaggGTTTATGTTCTCAGCATGTCGGTGTTGCACTGTGAATAAAGAAAGCCGAGAATTATTATGTGTCTAAAAATGCAGGCAGTTTTCTTCAATGAACAACATGTCCTTTGGTAGCTAATGCGTTGCCAAAGACAAAGAGtggatgtatttttaattttggtctgtattaattgttttacagtaaCGTCGGGTCAAGTTACGATGTTTGAATAGCCTACAATGTATCTGTCATAGATTAAAGCTATTTGACGTTTCATGATTGTCTTACCATGAAAGTATTTTCGGGGATCCTTAAGTGCCCAAGTCAAATGTTGTACAGTGAAAATGGACACAATTTCgtgaatgtattttattgtacGAATAATTATTTGTTACTCATGTAGAAATCATCCACTTCGAGTTAGAGTATTTAGAAATGTCTCGTTTTTAAATTATGGTATAGCTTATACttgataaaatacaaaatatttatggAAAAACTCGACGAAAATGTGTACAGAATTGTTACATTTAAAGTGTTTGTACATTGTTATTCAGTTTAATGATGTAAATTCTTGTGATAACAAATGCCAAACATTAAAATGAAGGAAAATATTATATAAAggcaataaaatgaaacaaatctaAA

Function

GO:

id name namespace
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0014032 neural crest cell development biological_process
GO:0007417 central nervous system development biological_process
GO:0048385 regulation of retinoic acid receptor signaling pathway biological_process
GO:0030902 hindbrain development biological_process
GO:0048703 embryonic viscerocranium morphogenesis biological_process
GO:0005634 nucleus cellular_component
GO:0046872 metal ion binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030219-92 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 animal organ development and regulation of retinoic acid receptor signaling pathway. Predicted to be active in nucleus. Is expressed in several structures, including germ ring; immature eye; nervous system; neural keel; and neural plate. Human ortholog(s) of this gene implicated in holoprosencephaly and holoprosencephaly 5. Orthologous to human ZIC2 (Zic family member 2).

Ensembl:

ensembl_id ENSDART00000054066

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00000607 lncRNA upstream 48536 29806494 ~ 29809496 (+) True XLOC_000355
TCONS_00000598 lncRNA upstream 349559 29507647 ~ 29508473 (+) True XLOC_000350
TCONS_00002842 lncRNA upstream 356998 29500308 ~ 29501034 (+) True XLOC_000349
TCONS_00000597 lncRNA upstream 405299 29451465 ~ 29452733 (+) True XLOC_000348
TCONS_00000596 lncRNA upstream 412313 29444452 ~ 29445719 (+) True XLOC_000347
TCONS_00003081 lncRNA downstream 213740 30074635 ~ 30079529 (+) False XLOC_000358
TCONS_00002844 lncRNA downstream 213815 30074710 ~ 30079529 (+) False XLOC_000358
TCONS_00002843 lncRNA downstream 213839 30074734 ~ 30079529 (+) True XLOC_000358
TCONS_00000621 lncRNA downstream 862485 30723380 ~ 30727619 (+) False XLOC_000364
TCONS_00000626 lncRNA downstream 993074 30853969 ~ 30857925 (+) False XLOC_000365
TCONS_00000606 mRNA upstream 33657 29798140 ~ 29824375 (+) False XLOC_000355
TCONS_00000605 mRNA upstream 60125 29766725 ~ 29797907 (+) True XLOC_000354
TCONS_00000604 mRNA upstream 93972 29759678 ~ 29764060 (+) True XLOC_000353
TCONS_00000603 mRNA upstream 93976 29759678 ~ 29764056 (+) False XLOC_000353
TCONS_00000601 mRNA upstream 114397 29738422 ~ 29743635 (+) False XLOC_000352
TCONS_00000610 mRNA downstream 1179 29862074 ~ 29953746 (+) False XLOC_000357
TCONS_00000611 mRNA downstream 1187 29862082 ~ 29876024 (+) False XLOC_000357
TCONS_00000612 mRNA downstream 1238 29862133 ~ 29876644 (+) True XLOC_000357
TCONS_00000614 mRNA downstream 222683 30083578 ~ 30310689 (+) False XLOC_000359
TCONS_00000613 mRNA downstream 222683 30083578 ~ 30310689 (+) False XLOC_000359
TCONS_00000579 other upstream 777696 29068662 ~ 29080336 (+) False XLOC_000337
TCONS_00000565 other upstream 1856095 27977370 ~ 28001937 (+) False XLOC_000332
TCONS_00000567 other upstream 1862421 27984393 ~ 27995611 (+) True XLOC_000332
TCONS_00000557 other upstream 2127052 27713349 ~ 27730980 (+) False XLOC_000329
TCONS_00000518 other upstream 3738408 26111385 ~ 26119624 (+) True XLOC_000317
TCONS_00000617 other downstream 305058 30165953 ~ 30166065 (+) True XLOC_000360
TCONS_00000618 other downstream 366496 30227391 ~ 30227505 (+) True XLOC_000361
TCONS_00000628 other downstream 1095030 30955925 ~ 30965004 (+) True XLOC_000366
TCONS_00000632 other downstream 1196345 31057240 ~ 31063850 (+) True XLOC_000367
TCONS_00000645 other downstream 1845774 31706669 ~ 31722875 (+) True XLOC_000376

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000049_00922883_00924745.mRNA True 1622 mRNA 0.51 2 CI01000049 922423 ~ 924902 (+)