RNA id: TCONS_00070938


Basic Information

Item Value
RNA id TCONS_00070938
length 2627
RNA type mRNA
GC content 0.47
exon number 6
gene id XLOC_036295
representative True

Chromosome Information

Item Value
chromosome id NC_007119.7
NCBI id CM002892.2
chromosome length 54304671
location 14453933 ~ 14484599 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GACACACGGCGAAAGAACTCACGCGCGAGCGCCCGACTGTTTCACGAGGATACGCACAGGCGCGAGGACTCTAAAAGGACACTATCCGGGGAGAAAAAATATTTGATGCACATCTGAGATCCTCAGACCTCCGCGAGCGTGTGCATGTGCGCGTTTTATCGGACTGGATGAAAATGATGCAAAGTGCGGCTGTGCTGCCCGGCGAGAGCGCGGTGAAGGGTCTGCCGGACATCCTCGGAGTGCCACTGCAACAAATCCCTCAGTGCGCAGGCTGCAGTCAACACATCCTGGATAAGTTCATCCTAAAGGTTCTGGATCGGCACTGGCACTCAAAATGCCTGAAGTGCGCCGACTGCCACGCGCTCCTGGCGGACAAATGTTTCTCTCGCGCCGGGAATGTCTACTGCAAAGAGGACTTCTTCAAgcgTTTCGGGACAAAGTGTGCATCGTGCCAGCAGGGGATTCCTCCTACACAGGTGGTCCGGAAAGCTCAGGACTTTGTGTACCATCTTCACTGTTTTGCATGTGTGATGTGCAGCAGACAGTTGGCCACTGGAGATGAGTTCTACCTCATGGAGGACGGCAGACTCGTGTGCAAAGAGGACTACGAAACAGCCAAGCAGAACGATGATTCAGAAACAGGAGCAAAACGTCCACGCACCACCATCACAGCCAAACAGCTGGAAACTCTCAAAAGCGCCTATAAGAACTCGCCAAAACCAGCAAGACACGTGCGAGAGCAACTTTCCTCAGAAACGGGCCTGGACATGAGAGTGGTGCAGGTGTGGTTTCAGAACAGACGGGCAAAAGAAAAACGGCTGAAGAAAGACGCGGGCCGGCATCGGTGGGGTCAGTTCTACAAAAGCGTCAAACGCAACAGAGGCTCCAGTAAAACAGAGAAGGAAAGCTCAGCCGACGATGCAGGACTCAGTGACAGTGAGCTCAGTTTCAGAGATGATCAGATCCTGTCAGACTTGGGTCATGCTAACGGCCTGTACGGAAGTGTCGGCGACGTCTCTAATGGTAACATGCTCAACGGGAGCTTCTCTTTGGATGGAGGCGGGCAGCCTTACCATGACCTGCGGGCAGGGAGTCCCTATGGCCTGCCTCAGTCGCCCTCGTCCATCACTTCCCTGCCAGGCCACACTCCTCTACTCAACAACTTAGGCTTCAGCATGGACGGCCTCATGGGTCAGGCCGGTCAGCCCAGTGTGGGTCAAGCTCTGAGAGCCATGGCCGGAGGCCCCACCTCTGACCTATCCACAGGAAGCAGCACGGGATACCCAGACTTCCCCACCAGCCCGGCCTCATGGCTCGATGAAATGGACCACTCTCAGTTCTGAGGTCAGACACTATGAGGGAAAGTGCGCTACTATGGACAACATTTTATCGACGTAATTCCCAGAACTGGCCACGATTGACAGTGTTCGGTGTGGGCAAACCCCCATGGAATGCCTGCACTGTATCATTTTGTAACTCGTATTTTTTCATCGTTCTCAAAACTGGATTGGAGGATTTCCAGCATGAGAACCCCCCAGGCCACCCTGGAAAATTAATCACGATCCAACGCGTTTTTGAGAACAGGAGGGTTCCATGCATGTTTCCGAATGAGGAGGAAAATCGTCCACATTCAAAATGCCGACGCACTTTAATGTATGTTCCTCCTCGACTGAATACTGGAAACAGAGGAGCGCACCGAGCAAGGAGAGATATTTAAACAAGTGGCACAAGTGTATCTTTCCTATTTACAAGGGGTTGGGATTTTAATGGTTGACACTTTCTAAACGGCTCTACTAGAGACGGTCCTTCTCGTCAACAGGCCTGAAGAACAGAAAAAGGTTATTTTTTAATAAGGACGAATCCGCATGCACTGCTCTGAGTTTTAAAATCTCTGTGTCAATGCTTCTTTTTGGTCATATCCAGGAAGATAGATTGAAATTaaggttattatttatttattttttggtattaccACATTGAAATGTGTTTTCGTTCCTAGTCATTGCTCCATGAGCAAAACTTTATATATTTCAATGCATTTGGATGTTATTTATTTCAGAGCAGATGACAGTAGTGGATTTCCATTACACAGACACAAGTACCTTTATGGCCTGATCAGTTATTATCAAGCAAACCAAGTGAAAGGGAAACTTACTCTGCTATTTTCTTTCTTATTAGACACGTTTAAGCAACAACTGTGAGGAtttcatgttatttatttctattttgggTACCAGTGTCAGTATTATGAAGGGTTGAGTTATGGGGAAGACTACAGTGATGTTATAAACACAAGGAGAATCATTTTCAGTTCGATACTGCAAAATTGGACCCACACACTGGTAAAAGGGATGTTATGCTGAAAAAGTGAACATAAGCTAATAAGAGCAACATGGAggaaaacaagaagaaaaataaCCATGTTTTTGTTGAGTCTTAATGGCTGTAAATTTTGTAAAGTCTCAAAAAGTGTCGACAGTCTTGTTTCATGAGCACTATTTATTGCTATGgatctttggaaaaaaaaaagagcactgAATTTAGTCCTATATGCCTTCTGTCCAATGGTATGAATTGTGTACAGTCAAATCTATATGGAGAAATAAAGTCGAATCGTCTTTGGGTTA

Function

GO:

id name namespace
GO:0021521 ventral spinal cord interneuron specification 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:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0000977 RNA polymerase II transcription 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-060728-1 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 ventral spinal cord interneuron specification. Predicted to be active in nucleus. Is expressed in adenohypophyseal placode; nervous system; spinal cord neural keel; and spinal cord neural tube. Human ortholog(s) of this gene implicated in panhypopituitarism. Orthologous to human LHX4 (LIM homeobox 4).

Ensembl:

ensembl_id ENSDART00000057644

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00070937 lncRNA downstream 1495 14438790 ~ 14452438 (-) True XLOC_036294
TCONS_00070929 lncRNA downstream 274159 14172076 ~ 14179774 (-) False XLOC_036290
TCONS_00070916 lncRNA downstream 410049 14029921 ~ 14043884 (-) False XLOC_036283
TCONS_00070911 lncRNA downstream 481375 13970890 ~ 13972558 (-) True XLOC_036280
TCONS_00072011 lncRNA downstream 737356 13714942 ~ 13716577 (-) True XLOC_036277
TCONS_00072407 lncRNA upstream 6694 14491293 ~ 14495346 (-) True XLOC_036297
TCONS_00070943 lncRNA upstream 93516 14578115 ~ 14578768 (-) True XLOC_036299
TCONS_00072408 lncRNA upstream 298615 14783214 ~ 14790721 (-) True XLOC_036300
TCONS_00072409 lncRNA upstream 593437 15078036 ~ 15081665 (-) True XLOC_036301
TCONS_00072410 lncRNA upstream 766584 15251183 ~ 15251469 (-) True XLOC_036303
TCONS_00070935 mRNA downstream 78043 14244476 ~ 14375890 (-) True XLOC_036293
TCONS_00070934 mRNA downstream 214910 14211746 ~ 14239023 (-) True XLOC_036292
TCONS_00070933 mRNA downstream 244081 14185295 ~ 14209852 (-) True XLOC_036291
TCONS_00070932 mRNA downstream 269510 14180064 ~ 14184423 (-) True XLOC_036290
TCONS_00070930 mRNA downstream 270668 14172124 ~ 14183265 (-) False XLOC_036290
TCONS_00070939 mRNA upstream 19011 14503610 ~ 14554785 (-) True XLOC_036298
TCONS_00070940 mRNA upstream 74779 14559378 ~ 14609284 (-) False XLOC_036299
TCONS_00070942 mRNA upstream 76623 14561222 ~ 14604606 (-) False XLOC_036299
TCONS_00070941 mRNA upstream 76623 14561222 ~ 14604606 (-) False XLOC_036299
TCONS_00070944 mRNA upstream 599787 15084386 ~ 15129573 (-) False XLOC_036302
TCONS_00070936 other downstream 2150 14414353 ~ 14451783 (-) False XLOC_036294
TCONS_00070922 other downstream 359417 14092794 ~ 14094516 (-) True XLOC_036286
TCONS_00070909 other downstream 576088 13877728 ~ 13877845 (-) True XLOC_036279
TCONS_00070885 other downstream 1214841 13238973 ~ 13239092 (-) True XLOC_036261
TCONS_00070876 other downstream 1441106 12998252 ~ 13012827 (-) False XLOC_036256
TCONS_00070951 other upstream 807768 15292367 ~ 15305523 (-) True XLOC_036304
TCONS_00070954 other upstream 1148133 15632732 ~ 15632847 (-) True XLOC_036307
TCONS_00070956 other upstream 1431611 15916210 ~ 15916327 (-) True XLOC_036309
TCONS_00070966 other upstream 2081238 16565837 ~ 16566479 (-) True XLOC_036317
TCONS_00070975 other upstream 2125649 16610248 ~ 16610319 (-) False XLOC_036322

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000010_05902969_05911426.mRNA True 1998 mRNA 0.50 6 CI01000010 5902969 ~ 5912165 (+)