RNA id: TCONS_00023807


Basic Information

Item Value
RNA id TCONS_00023807
length 2121
RNA type mRNA
GC content 0.41
exon number 2
gene id XLOC_012070
representative True

Chromosome Information

Item Value
chromosome id NC_007128.7
NCBI id CM002901.2
chromosome length 53461100
location 21790606 ~ 21793113 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GCTATTGTACGTGCCCAATCGCCGTATACTTTCTGCATTTAACTCGggtgacatttttatttcatcattAGCATCTGGCGCCAGACGGTCGCGGTGAGCATCATTTTCACCAAGGAACTCTCGGAAGATGATCAGCAAGATTAATATTGTTTATCTCGATCCGCGTTATTGTCTTTCGTTTTAACGTCAATGCTGACCGTAAACAACCGCGTTTAAGTTCCCATTGCTGGAAGAGTTTACCAAggacttttaaactgtttaaagattttcttttttaacgCGTTTTTAACGATTTATAAATTGTAGTATAAACCCGAATATCAAGCCAACATGCCCGAAACAACACAGGATACGTGTGCTTCAGCGAAAGACTCtccatttttcattaaaaatcttCTCAATTCTGACAGTAAGCCGTCAAAGCCTAAGCCTATTTTGGCACCCACTAAAGCAGGACTTGATGGCAGCTTCTCCCTTTCTCAGGTTGGGGAAATAAACTTTCCTCGCTTTGAGTTACCCACCCAGCGCTTTGCGTTACCGGCTTACCTTGAGCGTGCCTCGGCGTGGTGGTACCCGTACACACTCAGTGCATCCGCGCATCTTCACAGAACAGAAGCAGCACAGAAAGCGAGGGACTCTTCGCCGACCACAGGCACCGACCGAGATTCCCCCGAGCTTGTGCTCAAATCAGATCCGGACGCCAAGGACGATGAAGACGACAACAAAAGTGGCGACGAGATTGTCCTCGAGGAGAGCGACACCGAAGACGGTAAAAAAGAAGGCGGCATAGACGACTGGAAGAAGAGTGACGACGGCGCTGACAAGAAACCTTGCCGGAAAAAGAAAACTCGCACGGTGTTCTCGCGGAGTCAGGTGTTCCAGCTGGAGTCCACCTTCGACATGAAACGCTACCTCAGCAGCTCGGAGCGCGCGGGCCTTGCTGCCTCCCTTCACCTCACAGAGACTCAAGTGAAAATCTGGTTTCAGAACCGCAGAAACAAATGGAAACGTCAGCTGGCCGCAGAGCTGGAGGCCGCCAACTTGAGCCACGCAGCAGCACAAAGGATTGTGAGAGTACCCATCCTGTATCACGAGAACTCGGCCTCTGAGAGCACCAACACAGCGGGCAACGTTCCTGTAAGCCAGCCGCTGCTCACTTTCCCTCATCCGGTTTACTACTCGCACCCCATCGTCACCTCCGTGCCCCTCCTCAGACCGGTTTGAGAGGACGACAGATGTCTTTTTCTATGTAACTATGTAACTAAATTTTACAGAGACTCGAAAGAGGGAAAGAGAGAAAATGGGAAAATGAAACCAAGAGACAAAGATATTTTTGtttagaaaatacaaaaaaaaaattaaagaaaagaaaaaaatgtacaaagACGCACTATCATGCATTTGAGCccgacattttttgttttgttttacaattcCTAAAAATACCCATAAAACTACACATAAATAAGGCTGTTTAGAGGCCTGTATTTCAAATGTTGATGTTGGTTGGTGGTAAATTTCTGACTTTGTTTATTCACTTTGTCATtatacaactactactaataataatattaatattattattattattaataataataataataattattattattattattattgtacctGCTACGGTTTATCTGTTTATATAACAAATCAACTTGTTCAACTTGTTGACACGAAAAGTCTTTAATACACACGTTTAAGTTTCTTTACAGCACCGAAAACGCGTACCCACAGACAGCCCTGAACACGGATGTGCAATACTACTGTGTATGATCTGTATATTTAGACAACATTACTATTCTTATTTTAGACACGTTTTCTTACCAAACATTTCTTAGGTTAAGAAGTTAACCGTTAAAACGATTTAACTGCTTGGTCCCGCGTTCAATAGACAATCATATATCTGACAGACATTACAGTTAAACTGAAGACAAAAACACGAAGAATAAATACTTTTACTTTTATCTATATTATTTACAGATGTATATGTACATGTACAGATATAACGAACCAAAAGGAAAGGTGTCATTTGTACAGTAACAGATACGttcttttttacattgtattgcTAAATTCTGTTGTGAAATAAACGAAGACTACTGAAGTCAA

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0030154 cell differentiation biological_process
GO:0042472 inner ear morphogenesis biological_process
GO:0007275 multicellular organism development biological_process
GO:0048916 posterior lateral line development biological_process
GO:0007399 nervous system development biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003677 DNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-001020-1 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Acts upstream of or within inner ear morphogenesis and posterior lateral line development. Predicted to be active in nucleus. Is expressed in dorsolateral placode; nervous system; neural rod; neural tube; and otic vesicle. Orthologous to human HMX3 (H6 family homeobox 3).

Ensembl:

ensembl_id ENSDART00000104612

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00024893 lncRNA downstream 348327 21432693 ~ 21442279 (-) True XLOC_012067
TCONS_00024892 lncRNA downstream 570127 21213422 ~ 21220479 (-) True XLOC_012063
TCONS_00024538 lncRNA downstream 871934 20900812 ~ 20918672 (-) True XLOC_012055
TCONS_00024537 lncRNA downstream 882363 20900812 ~ 20908243 (-) False XLOC_012055
TCONS_00024536 lncRNA downstream 888004 20900812 ~ 20902602 (-) False XLOC_012055
TCONS_00023812 lncRNA upstream 40621 21833734 ~ 21835452 (-) False XLOC_012072
TCONS_00023813 lncRNA upstream 46516 21839629 ~ 21842130 (-) True XLOC_012072
TCONS_00024539 lncRNA upstream 70542 21863655 ~ 21864182 (-) True XLOC_012073
TCONS_00023827 lncRNA upstream 319651 22112764 ~ 22137123 (-) True XLOC_012080
TCONS_00024894 lncRNA upstream 691692 22484805 ~ 22504384 (-) True XLOC_012082
TCONS_00023806 mRNA downstream 6454 21782043 ~ 21784152 (-) True XLOC_012069
TCONS_00023805 mRNA downstream 172988 21607239 ~ 21617618 (-) True XLOC_012068
TCONS_00023804 mRNA downstream 349142 21432693 ~ 21441464 (-) False XLOC_012067
TCONS_00023803 mRNA downstream 372266 21372291 ~ 21418340 (-) True XLOC_012066
TCONS_00023802 mRNA downstream 421831 21311401 ~ 21368775 (-) True XLOC_012065
TCONS_00023808 mRNA upstream 33712 21826825 ~ 21832190 (-) False XLOC_012071
TCONS_00023809 mRNA upstream 34192 21827305 ~ 21832119 (-) True XLOC_012071
TCONS_00023810 mRNA upstream 40606 21833719 ~ 21842135 (-) False XLOC_012072
TCONS_00023814 mRNA upstream 76931 21870044 ~ 21884323 (-) True XLOC_012074
TCONS_00023815 mRNA upstream 189504 21982617 ~ 21993707 (-) False XLOC_012075
TCONS_00023801 other downstream 510421 21279873 ~ 21280185 (-) True XLOC_012064
TCONS_00023793 other downstream 660229 21130261 ~ 21130377 (-) True XLOC_012061
TCONS_00023786 other downstream 811654 20966835 ~ 20978952 (-) True XLOC_012057
TCONS_00023778 other downstream 1087309 20703179 ~ 20703297 (-) True XLOC_012054
TCONS_00023774 other downstream 1124680 20659871 ~ 20665926 (-) True XLOC_012050
TCONS_00023811 other upstream 40611 21833724 ~ 21859164 (-) False XLOC_012072
TCONS_00023820 other upstream 209744 22002857 ~ 22010668 (-) False XLOC_012077
TCONS_00023839 other upstream 993061 22786174 ~ 22786291 (-) True XLOC_012087
TCONS_00023840 other upstream 1132096 22925209 ~ 22925337 (-) True XLOC_012088
TCONS_00023856 other upstream 1870098 23663211 ~ 23666478 (-) True XLOC_012099

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000312_00849493_00850764.mRNA True 1983 mRNA 0.44 2 CI01000312 848816 ~ 851179 (-)