RNA id: TCONS_00050629


Basic Information

Item Value
RNA id TCONS_00050629
length 2903
RNA type mRNA
GC content 0.48
exon number 19
gene id XLOC_025758
representative True

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 53317040 ~ 53350547 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GCTATTGTGCTCTACGATCCCCACACGTTGGGAAAGTGTTTGTATTTTTTgacaataacacaagtttctAGTTTTATAACGAGGATATATTCAGGCAAGGGAAAATGCCATCGCTAAGCGGAAAGGCGGACGTTTTATTCGAAGATGATGATTTGCCTTATGAGGAAGAAATCATCAGGAATCCATATTCAGTCAAGTGCTGGATGCGTTACATTGAGCACAAGCAAAGTGCACAGAAATCTGTGCTCAACATGATCTATGAAAGAGCTTTAAAGGAGTTGCCTGGCAGTTACAAATTGTGGTACAACTACCTGAGAGAGAGGAGAAAACAGGTGAAAGGAAAGTGCATCACGGATCCTGGATACGAGGAGGTGAACAACTGTCACGAGAGAGCGCTTGTGTTTATGCATAAGATGCCGAGGATATGGATTGATTATTGTCAGTTCATGGTGTCTCAGTGCAAAATTACACGGAGCAGACGGACATTCGATAGAGCATTAAGAGCTCTGCCCATCACCCAGCATCCTCGCATCTGGCCTTTGTATCTTCGCTTTGCCCGGAACCTGCCTCTACCAGAGACCGCTATCCGTGTTTACCGCCGCTACTTGAAGTTGTCTCCTGAGAATGCAGAGGAATACATTGATTACTTGCGCTCGGTTGGACGCCTGGATGAAGCCGCATTACGTCTGGCTGCTGTGGTCAATGATGAAAACTTTGTTTCTAAAGAAGGAAAGTCCAATTATCAGTTGTGGCACGAGCTCTGTGATCTCATCTCACAAAACCCGGACAAGGTGACCTCGCTGAACGTGGGAGCGATTATCAGAGGAGGCCTCACTCGCTTCACTGACCAGCTGGGCAAACTCTGGTGCTCAATGGCCGATTACTACATCCGCAGTGGCCACTTCGAGAAGGCTCGAGATGTTTACGAAGAAGCCATCCTAACAGTTGTGACCGTGCGAGACTTCACCCAAGTTTTCGACAGCTACGCGCAGTTTGAGGAGAGCATGATCGCTGCCAAAATGGAGACCACATCTGAACTAGGCCAGGATGAAGACGATGACATTGACTTGGAGTTGCGGTTGGCTCGATTTGAGTCTCTTATAACTCGCCGGCCGCTTTTGTTAAACAGCGTGCTGCTGCGTCAAAACCCTCACAACGTTCACGAGTGGCACAAGAGAGTCAAACTCTATGAGGGCCAGCCTCGACAGATCATCAACACGTACACGGAAGCTGTGCAAACAATAGATCCTATGAAAGCCACTGGAAAGCCTCACAGTCTCTGGGTGTCCTTCGCCAAATTCTACGAGGATAATGAACAGATAGACGATGCTCGCACTATCTTCGAGAAGGCCACAAAGGTGAACTACAAGCAGGTGGATGATCTCGCTGCAGTGTGGTGTGAATATGGAGAGATGGAGCTGAGACACGAGAACTACGACCAGGCTTTGAGAATACTAAGGAAAGCTACAGCAATTCCAGCGAGAAAAGCCGAGTATTTTGATTCATCTGAGCCTGTGCAGAATCGTGTGTATAAATCCCTGAAAGTGTGGTCCATGCTTGCAGACTTGGAGGAAAGTCTTGGCACATTCCAGTCCACAAAGGCAGTGTATGACCGCATCATTGACCTCCGCATCGCCACACCTCAGATCATCATCAACTATGCCATGTTTCTTGAAGAGCACAACTACTTTGAGGAAAGCTTCAAGGCATATGAGCGTGGCATTGCCCTCTTCAAGTGGCCTAATGTTCATGACATCTGGAACACGTACCTCACTAAGTTCATCGACCGCTATGGAGGCAAGAAGCTGGAAAGAGCCCGAGATCTGTTCGAGCAAGCCCTGGACGGGTGTCCAGCCAAATATGCCAAAACCATCTACCTACTGTACGCCAAGCTGGAGGAGGAGTACGGTCTCGCTCGACACGCCATGGCAGTGTATGAGAGAGCCACTGCGGCAGTAGAGGCAGAGGAACGCCATCAGATGTTCAACATCTACATCAAACGCGCAGCAGAGATCTACGGAGTCACACACACCAGAGCCATCTATCAGAAGGCCATTGAGGTCCTGCCGGATGAACATGCCAGAGACATGTGTCTGCGCTTCGCTGACATGGAGAGCAAACTTGGGGAGATCGACAGAGCCAGAGCCATTTACTCTTACTGCTCCCAGATCTGTGACCCGAGGGTGACCGCTCATTTCTGGCAAACGTGGAAGGAGTTTGAGATTCGTCACGGTAATGAGGACACCATCCGAGAGATGCTGAGGATTAAACGCAGCGTTCAGGCCACGTACAACACGCAGGTCAACTTCATGTCCTCTCAGATGCTCAAGGCCACCGGCAACGCTACTGGAACAGTGTCAGATCTTGCTCCGGGGCAGAGTGGCGTGGACGACATGAGGCTGCTGGAGCAGAAGGCCCAACAGCTGGCAGCGGAGGCTGAGCGAGACAAACCCAAACCTAAAGAAAAGATTCTTTTCGTGAGGAGCGACACCTCTCGCAGTGAACTCGCTGAACTGGCCAAGCAGGCTAATCCAGATGAGATCgacattgatgatgatgatgatgaagatgaggatgcgGAGGACGCCGAGCCAGAGGAGGTGCAACTGGAGCAGAAATCTGTCCCTACTGCTGTCTTTGGAGGACTGAAGGACGACTGAATTCACAGatcatcacaaaaaaaaacaccccgAGTCTGATCTAAATAACTAAAAAGCTGAAAATGAACAGTAATTCATCCAAATGTCATTTTAGCAATACCAACTTGTACCACGTGGTGTCACTCTTTACAACATTtgtaagcttttattttttttatcatgactTTGGGTGGATAAAATGTTAAAGTGCTTGTTTTCGCCCTCCTTGTCTACTGTATATTAAATGAACAATCTTCATGCACA

Function

GO:

id name namespace
GO:0000349 generation of catalytic spliceosome for first transesterification step biological_process
GO:0006396 RNA processing biological_process
GO:0000398 mRNA splicing, via spliceosome biological_process
GO:0071013 catalytic step 2 spliceosome cellular_component
GO:0071014 post-mRNA release spliceosomal complex cellular_component
GO:0000974 Prp19 complex cellular_component
GO:0071007 U2-type catalytic step 2 spliceosome cellular_component

KEGG:

id description
ko03040 Spliceosome
ko03019 Messenger RNA biogenesis
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-040426-685 Predicted to be involved in generation of catalytic spliceosome for first transesterification step. Predicted to act upstream of or within RNA processing. Predicted to be part of Prp19 complex; U2-type catalytic step 2 spliceosome; and post-mRNA release spliceosomal complex. Orthologous to human XAB2 (XPA binding protein 2).

Ensembl:

ensembl_id ENSDART00000011780

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00052380 lncRNA upstream 507330 52806272 ~ 52809710 (+) False XLOC_025750
TCONS_00052379 lncRNA upstream 924835 52390252 ~ 52392205 (+) True XLOC_025739
TCONS_00052798 lncRNA upstream 928001 52377578 ~ 52389039 (+) True XLOC_025738
TCONS_00050604 lncRNA upstream 937568 52367302 ~ 52379472 (+) True XLOC_025737
TCONS_00052378 lncRNA upstream 1086887 52229866 ~ 52230153 (+) True XLOC_025735
TCONS_00052799 lncRNA downstream 176418 53526965 ~ 53652401 (+) False XLOC_025761
TCONS_00052381 lncRNA downstream 255619 53606166 ~ 53632347 (+) False XLOC_025761
TCONS_00052382 lncRNA downstream 281571 53632118 ~ 53649626 (+) True XLOC_025761
TCONS_00052383 lncRNA downstream 760842 54111389 ~ 54111972 (+) True XLOC_025765
TCONS_00050637 lncRNA downstream 872778 54223325 ~ 54226528 (+) True XLOC_025763
TCONS_00050628 mRNA upstream 42755 53240562 ~ 53274285 (+) True XLOC_025757
TCONS_00050627 mRNA upstream 85696 53228684 ~ 53231344 (+) True XLOC_025756
TCONS_00050625 mRNA upstream 92760 53116172 ~ 53224280 (+) False XLOC_025755
TCONS_00050626 mRNA upstream 93428 53156813 ~ 53223612 (+) True XLOC_025755
TCONS_00050623 mRNA upstream 240571 52999962 ~ 53076469 (+) False XLOC_025754
TCONS_00050630 mRNA downstream 1471 53352018 ~ 53449437 (+) True XLOC_025759
TCONS_00050631 mRNA downstream 161389 53511936 ~ 53522208 (+) True XLOC_025760
TCONS_00050632 mRNA downstream 422709 53773256 ~ 53919463 (+) True XLOC_025762
TCONS_00050633 mRNA downstream 662161 54012708 ~ 54238460 (+) False XLOC_025763
TCONS_00050634 mRNA downstream 696795 54047342 ~ 54238460 (+) False XLOC_025763
TCONS_00050620 other upstream 488034 52828912 ~ 52829006 (+) True XLOC_025751
TCONS_00050613 other upstream 696865 52620058 ~ 52620175 (+) True XLOC_025746
TCONS_00050578 other upstream 3241850 50069595 ~ 50075190 (+) False XLOC_025717
TCONS_00050573 other upstream 4184563 49132341 ~ 49132477 (+) True XLOC_025709
TCONS_00050561 other upstream 5856437 47460488 ~ 47460603 (+) True XLOC_025690
TCONS_00050635 other downstream 716976 54067523 ~ 54067639 (+) True XLOC_025764
TCONS_00050662 other downstream 1948496 55299043 ~ 55299158 (+) True XLOC_025787
TCONS_00050664 other downstream 2132966 55483513 ~ 55483647 (+) True XLOC_025789
TCONS_00050682 other downstream 4285827 57636374 ~ 57639448 (+) False XLOC_025808
TCONS_00050688 other downstream 4475392 57825939 ~ 57829919 (+) True XLOC_025812

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000113_01180049_01192316.mRNA True 2919 mRNA 0.47 19 CI01000113 1179836 ~ 1192316 (-)