RNA id: TCONS_00038944


Basic Information

Item Value
RNA id TCONS_00038944
length 562
lncRNA type retained_intron
GC content 0.46
exon number 5
gene id XLOC_019784
representative False

Chromosome Information

Item Value
chromosome id NC_007132.7
NCBI id CM002905.2
chromosome length 45934066
location 38724046 ~ 38730641 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ctagTCGATACACACAACTCTTTCGAGGAGGAGTGAAAAATGGCGTCTCCGAAAACAGTGCCCAAAGATGCACAGGTTATGATGCAGATTCTTAAAGACATGGGGATCACGGAGTACGAACCCAGAGTGGTCAATCAAATGCTGGAGTTTACATACAgataTGTAACCACTATTATTGAGGATGCCAAAATATATTCTGCCCATGCCAAGAAGTCCAGTGTGGATGCAGATGATATAAGGTTAGCGATCCAATGTCGAGTGGATCAGTCCTTCACGTCTCCTCCGCCACGAGATTTTCTGCTGGACATTGCGAGGCAAAAGAACCAAACACCTTTGCCTCTGATCAAACCGTACACAGGTCCTCGTCTCCCTCCAGACCGTTACTGTCTCACTGCACCAAACTACAGACTAAAGTCCCTCCAGAAAAAGGTGTCTTCATCCGCGGGCAGGATAACAGTCCCACGCTTGAGTGTTGGGGCGGTCTCCAGCAGGCCAAGTACTCCAACACTTGGtcagttatttttatttgatttatttttgataCACATATTACTATACACTT

Function

GO:

id name namespace
GO:0006352 DNA-templated transcription, initiation biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0043966 histone H3 acetylation biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0000124 SAGA complex cellular_component
GO:0005669 transcription factor TFIID complex cellular_component
GO:0003713 transcription coactivator activity molecular_function
GO:0016251 RNA polymerase II general transcription initiation factor activity molecular_function
GO:0046982 protein heterodimerization activity molecular_function

KEGG:

id description
ko03022 Basal transcription factors
ko03021 Transcription machinery
ko03036 Chromosome and associated proteins

ZFIN:

id description
ZDB-GENE-030131-204 Predicted to enable transcription coactivator activity. Predicted to contribute to RNA polymerase II general transcription initiation factor activity. Predicted to be involved in RNA polymerase II preinitiation complex assembly and histone H3 acetylation. Predicted to act upstream of or within DNA-templated transcription, initiation. Predicted to be part of SAGA complex and transcription factor TFIID complex. Orthologous to several human genes including TAF9 (TATA-box binding protein associated factor 9).

Ensembl:

ensembl_id ENSDART00000151333

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00039684 lncRNA downstream 95250 38629308 ~ 38632907 (-) True XLOC_019782
TCONS_00038937 lncRNA downstream 109489 38605393 ~ 38618668 (-) True XLOC_019781
TCONS_00038931 lncRNA downstream 265011 38457283 ~ 38463146 (-) True XLOC_019779
TCONS_00039256 lncRNA downstream 270023 38457283 ~ 38458134 (-) False XLOC_019779
TCONS_00038925 lncRNA downstream 757002 37968040 ~ 37971155 (-) False XLOC_019775
TCONS_00038950 lncRNA upstream 316413 39046976 ~ 39058481 (-) True XLOC_019787
TCONS_00038952 lncRNA upstream 338790 39069353 ~ 39072774 (-) True XLOC_019788
TCONS_00039686 lncRNA upstream 597540 39328103 ~ 39331628 (-) False XLOC_019793
TCONS_00039687 lncRNA upstream 597540 39328103 ~ 39337096 (-) True XLOC_019793
TCONS_00039688 lncRNA upstream 628588 39359151 ~ 39362176 (-) True XLOC_019794
TCONS_00038938 mRNA downstream 10303 38659302 ~ 38717854 (-) False XLOC_019783
TCONS_00038939 mRNA downstream 10303 38659304 ~ 38717854 (-) True XLOC_019783
TCONS_00038935 mRNA downstream 108852 38585686 ~ 38619305 (-) False XLOC_019781
TCONS_00038936 mRNA downstream 109617 38589725 ~ 38618540 (-) False XLOC_019781
TCONS_00038934 mRNA downstream 146096 38518774 ~ 38582061 (-) True XLOC_019780
TCONS_00038946 mRNA upstream 119288 38849851 ~ 38853737 (-) False XLOC_019785
TCONS_00038947 mRNA upstream 119318 38849881 ~ 38852860 (-) True XLOC_019785
TCONS_00038948 mRNA upstream 275342 39005905 ~ 39024754 (-) True XLOC_019786
TCONS_00038949 mRNA upstream 299150 39029713 ~ 39058490 (-) False XLOC_019787
TCONS_00038951 mRNA upstream 336949 39067512 ~ 39081107 (-) False XLOC_019788
TCONS_00038929 other downstream 664843 38063197 ~ 38063314 (-) True XLOC_019777
TCONS_00038902 other downstream 1655077 37072951 ~ 37073080 (-) True XLOC_019765
TCONS_00038875 other downstream 4191783 34430460 ~ 34536374 (-) True XLOC_019748
TCONS_00038861 other downstream 5591074 33136948 ~ 33137083 (-) True XLOC_019739
TCONS_00038828 other downstream 6646008 32076707 ~ 32082149 (-) True XLOC_019725
TCONS_00038955 other upstream 536662 39267225 ~ 39267306 (-) True XLOC_019791
TCONS_00038972 other upstream 1347388 40077951 ~ 40081929 (-) True XLOC_019807
TCONS_00038990 other upstream 1672697 40403260 ~ 40411647 (-) True XLOC_019813
TCONS_00039012 other upstream 2520868 41251431 ~ 41251548 (-) True XLOC_019825
TCONS_00039016 other upstream 2620982 41351545 ~ 41351665 (-) True XLOC_019828

Expression Profile

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