RNA id: TCONS_00049705


Basic Information

Item Value
RNA id TCONS_00049705
length 2870
RNA type mRNA
GC content 0.48
exon number 11
gene id XLOC_025162
representative False

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 14768364 ~ 15058464 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CGACTCGTTTGCTGTTCCTCTCCCACCACGCTCCTTTTTTTTTTCGGGGCaaacttttctgtttttttctaaaggaGTAAAATGGGTCTTTGAGACTGTTGGCAATATTCCCCGCTCCACAATGGCCACCGAACCGTTTCTGGTGAATGAAGACCCTTCCAGAGGTCCTGGGATACCAGAGTGCTTCGTCGTGTCTGATTCCTACAGGGATGAATTTCATCCCTTCATCGAGGCTTTGCTGCCACATGTCCGTGCGTTCTCCTACACCTGGTTCAACCTCCAGGCCCGTAAGCGCAAATACTTCAAAAAGCACGAGAAGCGCATGACGAAGGATGAGGAGCGCGCCGTCAAAGACGAACTCCTGGGCGAGAAGCCCGAGATCAAGCAGAAGTGGGCGTCCCGTCTGCTCGCCAAGCTCCGCAAAGACATCCGCCCCGAGTTCCGCGAGGACTTTGTGCTCACCATCACGGGGAAGAAGCCGCCGTGCTGCGTGCTCTCCAACCCCGACCAGAAGGGCAAGATCCGCCGCATCGACTGCCTGCGGCAAGCCGACAAGGTCTGGCGCCTGGACCTGGTGATGGTTATCCTGTTCAAGGGAAGCCCGCTGGAGAGCACGGATGGAGAGAGGCTGGTCAAGTCCCCGCAGTGCTCAAACCACGGCCTCTGCGTGCAGCCGCACCACATCGGAGTGTCCGTCAAGGAACTGGACCTGTATCTGGCCTACTTCGTCCACACGCCAGAATCTGGACAATCGGATAACTCCAACCAGCAAGGAGAAGCAGACATCAAGCCTCCGCCCAATGGGCACTTAAGTTTCCAGGACTGCTTCGTGACGTCAGGTGTGTGGAACGTGGCAGAGCTGGTCCGTGTGTCACAGACACCAGTTGCCACAGCGACCGGACCCAACTTCTCTCTGGCCGACCTTGACAGTCCAGGATACTACAACATTAACCTGGGTCGCCGCTCCATTACGTCCACGCCATCAACCAGCTCCAACAAGCGTAAATCTATTGATGACAGTGAGATGGAGAGCCCAGTGGACGATGTCTTCTACTCGGGTCGTTCTCCTGCCCCGGGAGCGTCTCAGCCCAGCGGCTGGCCCAATGACGTCGATGCAGTGCAACACCATTTGGCCAGTATGCAGGAGAGGAAGATAAAACACGAATCCGATGGCGTGCAGTTTCCTTACCATGcaGGAAGTCCCCGCGCCTCTGCTTCCTCCCTGCACTTCCCCTCACCCTCCCTCATCCAGCAGTCCAGCCCGTACTTCACCCATCCCACCATCCGATACCACCACCACCCGGGACAGGACCCGCTCAAGGAGTTTGTGCAGTTTGTGTGCGCCGATGGATCTGGACAGGCTAGCGGTCAGcatACTCCACGCCAGGCTCCACAGCTCCCAACAGGTTTGTCAGCATCGGATCACGGGACAACAACTTTCTGAACATCCCCCAGCAGACGCAGtcatgGTTCCTTTGACGAGGTCCTGCCTGCAACCTGTCGACACAATTTGAAAGTTTtcttttttgacaaaaaaaaaatcctgtttgaAAATTCCCTCCCACCCGAAACGCACCCTACGAGACGTGAGCAGAATATGATTGGGAAACGTTCGAGCATGTATTTGCCAACCGTCAGACGCCCTTCAAACCCACATGAGCAGCTCCGCTAAAGACTGTCAGATCACCGGCGGAGGAAACAGACGGACTGACACACACAAACTACAGTATCTGATCTACAGAGACACTAAATCATACTAGCAACAAGGATGTAGTGTACAATGGCCGGGATTTTCAACAGTTTCAGTGGTGAGGATTCAGACACAACAAACATGCAAGATTTGTACTCGATCCCTTATATTTTGTTTGTAATCAAAACACTTAAACGTGCTGACATTCAGCAAACAGGCGACACTAAAATTCACTAGACGTTTCACATTTATAGCGGGTGAAACGTCTGTTTAATGTTCCCTtcttcagtcaattcataaactaACTACGAAAAGCAGGAGTATTGCACTACAAATATGAGAAGAACACTAGATTGACGTGCACTATTGATCGACGGCGGACATTATTTGCACATTAGATTGCGGAGAAAAATGAACACACGCTACAAACTACCCAGAGATGCTTCTGAAAGGACGTCCTCATTTTTAGGCCTTGAACAAAAATGTTTTGTCATTTCAGGCCCTTAGCCAACTAGATTTTTTTAGCACTCCTGTAGGACAGACAACGCACACATTTAAGGCACATTTGTGAGATTTTGTGGCTGTTAAAGGACCTCTGTTTGCTGGTAATAGTGCAGTGATACACTAAATCAACCAAATTCACTGAGCAACAGTCAGTTTGTGTTACTTTGAATGggatatatgcacagctagtgttaaTCATCTAATGATAAACTTCTCGTGAAAGTCTAATGTGACttttcataaggtttcttttacagcatcgatgttgtaatgtaattaaaatacactcAGTTAAATAGACTGAAGCATTGATTTAGTCAAGCGTAAAACGATTTAAAAGATTGTCAGGAGCAGCTGGCGAGTGCaaaaactctattgaaaatactggggtaaaataaatgacatggcagggggaaatggattttaatgcagtgcttcttgtatggtttaagacccactttatatcgtacaGCAATCAGGCAGTAAAAAAAcactcatttttaaagaaatcagaccttaaacgtgacgattttataatggaaagactgttcaccggaagcgctgagGCTGGCTGCCTGAAATGAaatgtctgtgtgcatataccccttTGATGTGAACTCTACTGAAGGTTTTGCTCAAACTGGATTCTATTAAAACAGAAACGATTTCACTCACT

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0006260 DNA replication biological_process
GO:0005634 nucleus cellular_component
GO:0003677 DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-060421-5000 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within DNA replication and regulation of transcription, DNA-templated. Predicted to be active in nucleus. Is expressed in midbrain; muscle; and telencephalon. Human ortholog(s) of this gene implicated in Marshall-Smith syndrome and Sotos syndrome 2. Orthologous to human NFIX (nuclear factor I X).

Ensembl:

ensembl_id ENSDART00000090235

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00052622 lncRNA upstream 480523 14277650 ~ 14287841 (+) True XLOC_025151
TCONS_00052331 lncRNA upstream 513599 14251244 ~ 14254765 (+) True XLOC_025149
TCONS_00052330 lncRNA upstream 519826 14244198 ~ 14248538 (+) False XLOC_025148
TCONS_00049683 lncRNA upstream 520214 14242119 ~ 14248150 (+) False XLOC_025148
TCONS_00052329 lncRNA upstream 565845 14201043 ~ 14202519 (+) True XLOC_025147
TCONS_00052623 lncRNA downstream 171489 15229952 ~ 15231838 (+) True XLOC_025164
TCONS_00052624 lncRNA downstream 213483 15271946 ~ 15272293 (+) False XLOC_025165
TCONS_00049715 lncRNA downstream 446721 15505184 ~ 15506157 (+) False XLOC_025169
TCONS_00049716 lncRNA downstream 446814 15505277 ~ 15506157 (+) True XLOC_025169
TCONS_00052332 lncRNA downstream 459089 15517552 ~ 15517899 (+) True XLOC_025170
TCONS_00049703 mRNA upstream 80254 14641962 ~ 14688110 (+) False XLOC_025161
TCONS_00049702 mRNA upstream 129965 14611299 ~ 14638399 (+) True XLOC_025160
TCONS_00049699 mRNA upstream 162246 14571813 ~ 14606118 (+) False XLOC_025159
TCONS_00049701 mRNA upstream 162518 14581643 ~ 14605846 (+) True XLOC_025159
TCONS_00049700 mRNA upstream 187154 14571839 ~ 14581210 (+) False XLOC_025159
TCONS_00049707 mRNA downstream 118274 15176737 ~ 15186292 (+) True XLOC_025163
TCONS_00049708 mRNA downstream 213480 15271943 ~ 15284693 (+) False XLOC_025165
TCONS_00049709 mRNA downstream 220553 15279016 ~ 15284095 (+) True XLOC_025165
TCONS_00049710 mRNA downstream 238361 15296824 ~ 15317392 (+) True XLOC_025166
TCONS_00049711 mRNA downstream 299996 15358459 ~ 15392466 (+) False XLOC_025167
TCONS_00049704 other upstream 83761 14674769 ~ 14684603 (+) True XLOC_025161
TCONS_00049690 other upstream 368712 14399225 ~ 14399652 (+) True XLOC_025154
TCONS_00049684 other upstream 523580 14244666 ~ 14244784 (+) True XLOC_025148
TCONS_00049675 other upstream 910648 13848226 ~ 13857716 (+) False XLOC_025143
TCONS_00049661 other upstream 1361826 13406451 ~ 13406538 (+) False XLOC_025131
TCONS_00049719 other downstream 632840 15691303 ~ 15719823 (+) True XLOC_025174
TCONS_00049721 other downstream 697260 15755723 ~ 15774178 (+) False XLOC_025176
TCONS_00049736 other downstream 1314549 16373012 ~ 16373127 (+) True XLOC_025188
TCONS_00049741 other downstream 1510802 16569265 ~ 16588629 (+) True XLOC_025190
TCONS_00049746 other downstream 1610140 16668603 ~ 16678650 (+) False XLOC_025192

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000333_00494254_00497661.mRNA True 821 mRNA 0.60 3 CI01000333 494254 ~ 497672 (+)
bowfin (Amia calva) AMCG00008522 True 993 mRNA 0.65 5 CM030126.1 3230842 ~ 3235566 (-)