RNA id: TCONS_00043291


Basic Information

Item Value
RNA id TCONS_00043291
length 981
lncRNA type retained_intron
GC content 0.43
exon number 4
gene id XLOC_021834
representative True

Chromosome Information

Item Value
chromosome id NC_007134.7
NCBI id CM002907.2
chromosome length 46223584
location 34030550 ~ 34043651 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TGAATTAAGTTGATTTTCATTACAGTTAGACCTTAGCACAAAGTCAAAATGACTCTGTTATGAATCCCACAACCTCTCTTTCCAGATTGAGCAGTTTGTGTACGCCTCTCCTCATGATGGCAAATCCTGGGAGATGTTTGATGAAATGATTGGAACCGCTGAATCCTTTTATCAAACATTAGGAATTCCTTATCGAATTGTCAACATCGTGTCAGGTGCTTTGAACCACGCAGCTAGTAAAAAGCTGGATTTAGAGGCTTGGTTTCCTGGTTCCCAGGCTTTTAGAGAGCTTGTGTCATGCTCAAACTGTACAGACTATCAGGCTCGTCGCTTGCGGATTCGATACGGGCAAACTAAGAAAATGATGGACAAGGCTGAGTTTGTGCACATGCTCAATGCCACCATGTGTGCGACCACTCGTGTCATCTGTGCCATCCTGGAGAACTTCCAAACAGAGGAAGGCATCATTGTTCCAGAACCCCTCAAGGCATTCATGCCTCCAGgtttaacagaaataattaagTTTGTGAAGCCAGCCCCCATTGACCAGGAAACCACAAAGAAGCAGAAGAAACAGCAGGAAGGAGGAAAGAAGAAGAAACATCAGGGCGGCGATGCTGATCTAGAGAACAAAGTGGAGAACATGTCTGTCAATGACTCTTAGACACGCCCTCCACAGTCTCATCCAATCATATTGGTTCACAGGTTCTTCATTTCGTGTAACCTGATCACAATTGCTGTCCCCTGGAGCTCTCACTTTTTCATCCAGGACAGTCCTACTGGAACTAAAGGTGATGCTGTCATGCTTATAATCTTATCTCATATCAACCAATCATTTTCATGCCAAGGGGTCTTTagaaatattcaattaaatgCATGGTGACAAGACATTTAGCCATTAGACTGAAATGCTTTTACAGCACTTTAATTTCCTGAAGGCACTGCATTTCAAACCTGCCAATGAATTAAAGGGAACATGAC

Function

GO:

id name namespace
GO:1903671 negative regulation of sprouting angiogenesis biological_process
GO:0006412 translation biological_process
GO:0006418 tRNA aminoacylation for protein translation biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0001525 angiogenesis biological_process
GO:1901342 regulation of vasculature development biological_process
GO:0006434 seryl-tRNA aminoacylation biological_process
GO:0016525 negative regulation of angiogenesis biological_process
GO:1904046 negative regulation of vascular endothelial growth factor production biological_process
GO:0001569 branching involved in blood vessel morphogenesis biological_process
GO:0061300 cerebellum vasculature development biological_process
GO:0001944 vasculature development biological_process
GO:0005829 cytosol cellular_component
GO:0005634 nucleus cellular_component
GO:0005737 cytoplasm cellular_component
GO:0000049 tRNA binding molecular_function
GO:0004812 aminoacyl-tRNA ligase activity molecular_function
GO:0005524 ATP binding molecular_function
GO:0004828 serine-tRNA ligase activity molecular_function
GO:0003677 DNA binding molecular_function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function
GO:0000166 nucleotide binding molecular_function
GO:0016874 ligase activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-040831-1 Enables serine-tRNA ligase activity. Involved in negative regulation of sprouting angiogenesis; negative regulation of vascular endothelial growth factor production; and seryl-tRNA aminoacylation. Acts upstream of or within branching involved in blood vessel morphogenesis; cerebellum vasculature development; and negative regulation of angiogenesis. Located in nucleus. Is expressed in several structures, including alar plate midbrain region; immature eye; liver; midbrain; and musculature system. Used to study arteriovenous malformations of the brain. Human ortholog(s) of this gene implicated in intellectual disability. Orthologous to human SARS1 (seryl-tRNA synthetase 1).

Ensembl:

ensembl_id ENSDART00000147862

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00043285 lncRNA upstream 48114 33987455 ~ 33991280 (+) False XLOC_021832
TCONS_00043283 lncRNA upstream 55962 33978711 ~ 33983432 (+) True XLOC_021831
TCONS_00044857 lncRNA upstream 580129 33455563 ~ 33459265 (+) True XLOC_021820
TCONS_00044856 lncRNA upstream 1459960 32577050 ~ 32579434 (+) True XLOC_021815
TCONS_00044677 lncRNA upstream 1476580 32562610 ~ 32562814 (+) True XLOC_021814
TCONS_00044859 lncRNA downstream 4114 34047416 ~ 34185014 (+) False XLOC_021835
TCONS_00044858 lncRNA downstream 4114 34047416 ~ 34185014 (+) False XLOC_021835
TCONS_00044860 lncRNA downstream 721641 34764943 ~ 34768352 (+) True XLOC_021837
TCONS_00043299 lncRNA downstream 806413 34849715 ~ 34973141 (+) False XLOC_021838
TCONS_00044861 lncRNA downstream 806570 34849872 ~ 34987363 (+) True XLOC_021838
TCONS_00043287 mRNA upstream 15762 34001803 ~ 34023632 (+) False XLOC_021832
TCONS_00043289 mRNA upstream 16048 34005792 ~ 34023346 (+) True XLOC_021832
TCONS_00043286 mRNA upstream 34090 33991509 ~ 34005304 (+) False XLOC_021832
TCONS_00043284 mRNA upstream 34098 33987382 ~ 34005296 (+) False XLOC_021832
TCONS_00043282 mRNA upstream 63278 33963647 ~ 33976116 (+) True XLOC_021830
TCONS_00043292 mRNA downstream 4111 34047413 ~ 34185019 (+) False XLOC_021835
TCONS_00043294 mRNA downstream 4136 34047438 ~ 34110666 (+) False XLOC_021835
TCONS_00043295 mRNA downstream 4231 34047533 ~ 34184729 (+) False XLOC_021835
TCONS_00043298 mRNA downstream 277935 34321237 ~ 34753811 (+) True XLOC_021836
TCONS_00043300 mRNA downstream 947391 34990693 ~ 35025117 (+) True XLOC_021840
TCONS_00043288 other upstream 36521 34002757 ~ 34002873 (+) True XLOC_021833
TCONS_00043276 other upstream 209204 33828665 ~ 33830190 (+) True XLOC_021826
TCONS_00043274 other upstream 278729 33759747 ~ 33760665 (+) True XLOC_021824
TCONS_00043271 other upstream 501225 33538051 ~ 33538169 (+) True XLOC_021821
TCONS_00043268 other upstream 618554 33381154 ~ 33420840 (+) False XLOC_021819
TCONS_00043293 other downstream 4114 34047416 ~ 34053709 (+) False XLOC_021835
TCONS_00043296 other downstream 4261 34047563 ~ 34185009 (+) False XLOC_021835
TCONS_00043297 other downstream 10204 34053506 ~ 34185014 (+) True XLOC_021835
TCONS_00043302 other downstream 1359395 35402697 ~ 35461009 (+) False XLOC_021842
TCONS_00043305 other downstream 1383275 35426577 ~ 35469859 (+) False XLOC_021842

Expression Profile

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