RNA id: TCONS_00043231


Basic Information

Item Value
RNA id TCONS_00043231
length 4146
RNA type mRNA
GC content 0.50
exon number 26
gene id XLOC_021799
representative False

Chromosome Information

Item Value
chromosome id NC_007134.7
NCBI id CM002907.2
chromosome length 46223584
location 31979602 ~ 32007818 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CGGAAGTGCgcggttgtttttgttttgaatgaaGCGAGTAGCATGAGCATATGGATACGAGGATAACTATAGTCTAAAGCACCGTCCTCATGATGAACTTCGAGGGTCTGGACCCGGGTTTGGGCGATTATGCGCCTGGCCTGCATGGTGGCCTGGAGCCCGGTCTGGACTCTTCCCTGGACCCGCGGCTCGACCCGGCGCTACTGCAGGGTGTGGAGATCGACCCCGATGGGCTGGCTGTGTCAGAGTCTGTGCACATAGTGGAAGGCATGTACTCGGAGTTGCACAGCGTGGCAGCTGAAGTCGGGATCCCTGTGACAGCCACACACTTCGATCTGCAGGAGGAGTTGCTCTGGATGGGGAACCACCGGGGACACGCGAGTTCCTTCTTTGGGCCGACAATGGGCCGCTACTCGTCTTTCCAGGTGCACATGACTGACGACATTCGCCATATCCAGAGTATGGACACGGGGGTGCTGTTCCTGACCAAAAACAACCTCAGATGCCTCACACGAGGAGGTTTTATCATGTTTGATTATCCAATGGAGGAGGGTGCTGACATGCACAGCTTGATTCTTACTGAAAATAACACCTTGTTAATGGGAGGCCTGCAGAACTATGTGGCTGAACTGGACCTCACCACAGTGCAGGAAACTCAAAAATTTACTGTTGAAGTGCCTGGTGTCGCCATCATGAGACAAACTAGTCGTTTCTTCTTTTGTGGTCACACATCTGGCAAGGTGTCTCTTCGTGATCTGCGCACGTTTAAAATGGAGCACGAGTTTGATGCATTCTCCGGCAGCCTGTCTGATTTCGACATTCACGGTAACCTGTTAGCGGCATGTGGTTTCTCAAGTCGCGGTCTGAACGGGCTGTCCTGTGATCGGTTCCTCATGGTGTACGATCTGCGCATGATGAGGGCCGTCACCCCATTGCAGGTCCACGTGGACCCCCTATTCCTCCGCTTTATCCCCACATACACCTCCCGCCTGGCCATCATTTCACAAACAGGTCAGTGTCAGTTCTGTGAGCCCACCGGCCTGGCCAGCCTGGCTGATATCTTCCACGTCAACACAGTGGGCCAGCTGCTGATGAGCTTTGACGTGTCCTCCAGCAAGCAGGCTCTGTCATTCGGGGACTCGGGCGGCTGTGTGCATCTGTGGTCCAGCGCCCCTGAGGTGTCCTATAACAGCTACTCTAGAGACACAGAGCTGGCGCTGCCCTGCCTGGTGGACTCACTGCCGCAGATGGACTGGAACCACGAGCTGATGCCTCTGTCTCTTCTGCCAATGCCTCTCACCAGCACTGAGCCTCTGCTGTCTGACTGGCCCACCGCCCTCATCGCACCCAGCCCCAGACGAGCGCCTCCAGTAGACCCAGAGATTCTGAGGACAATGAAAACTGTGGGATTTATTGGATACGCACCAAATCCTAGAACCCGTCCCAGAAACcagGTTCCATATAAGATAAAAGATGTCGAGCTTGACTATGACAGCTATAATCAGGTGCCGGAGTCTCCCATTGGTCGAGACGAGGAGCCACATCTTTACATGGTGCCAAAGAAATACAGGAAGGTGACCATTAAATATTCCAAACTGGGACTGGAAGACTTTGATTTTAAGCACTATAATCGGACTCTGTTTGCTGGTCTGGAGCCTCACATACCCAACGCTTACTGTAACTGTATGATCCAGGTTTTGTACTTCCTGGAGCCCATCAGGTGTCTGGTACAGAATCACCTGTGTCAGAAAGAGTTCTGCCTGGCCTGTGAGCTGGGCTTCCTCTTCCACATGCTGGACCTGAGCAGAGGAGACCCCTGTCAGGCCAGTAATTTTCTCCGGGCTTTCCGGACAATTCCCGAGGCATCTGCTCTGGGTTTAATCCTGGCTGACTCCGATGAGCAGACTGGGAAAGCCCGTCTGGGCCGTCTAATCCAGAGCTGGAACCGTTTTATTCTTGCACAGCTGCATCAGGAAACGCTCGAGCAGGAAGGGCCGCAGGCGTACAGAGGAGCCAGCAGCAGCAGTGTGCTGAGCTCCTCAGGGGAGTCTGTGATTAGCCGGTTGTTTGGCTGTGAAGTGGAGAACAGCAGTCTGTGTTGTTGTGGAAAGGAGACGGTTCGCTCTTCATTGACGCTGCTGTTTACCATGCATTACCCCGAGCAGAGCTCCCTGGAGAAGAAGATAGAGGAATATGAATTTGTAGATATTCTGAGGAAGAGTATCTGTCTGGAACAGAGCACACAGGCCTGGTGTGACAACTGTGAGAAGTACCAGCCAACAGTGCAGACCAGGAACATTCGCTGTCTGCCTGATGTTCTGGTGATAAACTGTGAGGTGAACAGTGCAAAAGAGGCAGAATTCTGGAAGGCACAGACTGAGtatgtgttcaACAAAGCTTTGAAGAAAGAAGCAGCCGAACCTCCCAAACCTAAAGAGCCTTTACCCACAGAATGGTGTTTGGAagaaGAGCTGTGCAATGTGGAGGGCTTGACCTTTGACACTCAAGCAGAAGACATGAGGCATGTGTGGATTCCTCTCAGTCTGAGGATGTGCATCAGTAAAGCTCAAGGCCTGGAGGTCAGCAGCCTAACTGAGGGAGAGGAGCTGACTGAAAGTGAAGAGGCAGAAGGAGTGTCCATCTACGATCTGTTTGTCACTGTGTCGCATGTCCAGGACACTCGGACTGGAGGAAACATGGTGGCGCACATCAAAGTGGGCGAGACTTATCATCAGCGCAAAGAGGGAGTCACACACCAGCAGTGGTATCTGTTCAATGATTTTCTGATTGAGCCCATTGATAAGGCTGAATCGGTTCAGTTTGATGTGAACTGGAAGGTTCCTGCTGTACTTTATTACATCAAGAGGAACTACCACACCAAGTTTGATTTGCGCATTAAGAACCCTATCGAGGCAAGCGTTCTGCTGACGGAGGCTTCTTTAGCACGAAAACAGAGGAAGAGTCACGCCACCTTCATACCCCTCATGGTGAGCGAAATGCCACAGGTTGGAGACCTTGTCGGATTGGATGCAGAATTTGTCACTCTCAACCAGGAAGAGGCAGAACTGCGCAGCGATGGAACTAAGTCCACTATTAAACCCAGCCAGATGTCTGTTGCTCGTATCACTTGTGTGAGAGGCCAGGGACAAAATGAAGGAGTGCCGTTCATTGATGACTACATATCTACACAGGAACAGGTGGTAGACTATCTGACCCAGTATTCTGGTATCAAACCTGGAGATTTGGATGCAAAGATTTCCTCGAAACACCTGACTACTCTGAAATCCACATATCTTAAATTGCGGTTTCTTATTGACACTGGGGTTCGCTTTGTCGGGCACGGCTTACAGAAGGATTTCCGGGTCATAAACCTGATGGTCCCAAAAGACCAGGTGATCGACACTGTCTACCTCTTTCACATGCCTAGGAAACGAATGATCTCTCTGCGGTTCCTTGCATGGTATTTTCTTGATTTGAACATCCAGGGTGAAACTCATGACAGTATTGAAGATGCGCGGACTGCTTTGCAGTTGTACAGGAAGTACCTAGAGCTGAGCCATAATGGAGGACAGGAGGAGTTCCGGAAGGTTCTCAAGGCTCTCTATGAGAAAGGACGCAAGCTAGACTGGAAAGTTCCAGACATCGATTCTGCAGATGGTCAAGGCACAGCCGTATTTCCCTCAGTGATGGGTTTATGATTGGATCTGTTGGATATATTCCTGCCAAACAGATGCCAGCTCTCCAGCACTTCTTGTATAGACTTTCGGTGTTCTCTTCCAACACTGTTTCATCCAAATTGCCACCTGATACATATATTTCATGTTGCACATCTGAAATAAGGCATGTTTTCTGTCCTAGAAAAAAGTCTGCCATTTGAAAACTGAACAATGAACAATTCACCATGCCAGTTCCTAGTCTATATCTGGTCTGTCAGGAAGAAAGTACACAAACAAATCATGATTTCAACACCTGTAAGAGCTCGTTCAAGTGTTTCATGCTTGCTTGTTAATGTTGTGTTGGAAATTGctctcattctgaaaatgaataTGGATCACGCAGTCTGTGGATTTACTGGCTTGTTTTCTATTTTGTAAAATATGTTGTACTTTTTCATAATGTGGCAGCTGAATAAAAAACCTTTGGATA

Function

GO:

id name namespace
GO:0010606 positive regulation of cytoplasmic mRNA processing body assembly biological_process
GO:0006397 mRNA processing biological_process
GO:0000289 nuclear-transcribed mRNA poly(A) tail shortening biological_process
GO:0031251 PAN complex cellular_component
GO:0000932 P-body cellular_component
GO:0005634 nucleus cellular_component
GO:0005737 cytoplasm cellular_component
GO:0004518 nuclease activity molecular_function
GO:0046872 metal ion binding molecular_function
GO:0004527 exonuclease activity molecular_function
GO:0004535 poly(A)-specific ribonuclease activity molecular_function
GO:0016787 hydrolase activity molecular_function
GO:0003676 nucleic acid binding molecular_function

KEGG:

id description
ko03018 RNA degradation
ko03019 Messenger RNA biogenesis

ZFIN:

id description
ZDB-GENE-030131-3113 Predicted to enable metal ion binding activity; nucleic acid binding activity; and poly(A)-specific ribonuclease activity. Predicted to be involved in nuclear-transcribed mRNA poly(A) tail shortening. Predicted to act upstream of or within mRNA processing. Predicted to be located in cytoplasm and nucleus. Predicted to be part of PAN complex. Predicted to be active in P-body. Orthologous to human PAN2 (poly(A) specific ribonuclease subunit PAN2).

Ensembl:

ensembl_id ENSDART00000140351

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00044851 lncRNA upstream 93689 31863739 ~ 31885913 (+) True XLOC_021795
TCONS_00043214 lncRNA upstream 730657 31245431 ~ 31248945 (+) False XLOC_021787
TCONS_00043215 lncRNA upstream 730812 31245792 ~ 31248790 (+) True XLOC_021787
TCONS_00044850 lncRNA upstream 893651 31078564 ~ 31085951 (+) True XLOC_021785
TCONS_00043203 lncRNA upstream 1206716 30764287 ~ 30772886 (+) True XLOC_021777
TCONS_00043238 lncRNA downstream 20807 32028625 ~ 32038219 (+) False XLOC_021802
TCONS_00043241 lncRNA downstream 26923 32034741 ~ 32038219 (+) False XLOC_021802
TCONS_00043242 lncRNA downstream 29269 32037087 ~ 32038060 (+) False XLOC_021802
TCONS_00043249 lncRNA downstream 186590 32194408 ~ 32201494 (+) True XLOC_021805
TCONS_00044852 lncRNA downstream 202440 32210258 ~ 32213360 (+) True XLOC_021806
TCONS_00043230 mRNA upstream 25959 31942040 ~ 31953643 (+) True XLOC_021798
TCONS_00043228 mRNA upstream 38690 31933583 ~ 31940912 (+) False XLOC_021797
TCONS_00043227 mRNA upstream 60447 31913292 ~ 31919155 (+) True XLOC_021796
TCONS_00043226 mRNA upstream 64606 31912882 ~ 31914996 (+) False XLOC_021796
TCONS_00043224 mRNA upstream 149559 31815423 ~ 31830043 (+) False XLOC_021794
TCONS_00043233 mRNA downstream 3950 32011768 ~ 32020198 (+) True XLOC_021800
TCONS_00043234 mRNA downstream 13985 32021803 ~ 32027198 (+) True XLOC_021801
TCONS_00043235 mRNA downstream 20756 32028574 ~ 32033832 (+) False XLOC_021802
TCONS_00043236 mRNA downstream 20779 32028597 ~ 32038221 (+) False XLOC_021802
TCONS_00043237 mRNA downstream 20789 32028607 ~ 32038221 (+) False XLOC_021802
TCONS_00043229 other upstream 38728 31933675 ~ 31940874 (+) True XLOC_021797
TCONS_00043223 other upstream 312059 31667429 ~ 31667543 (+) True XLOC_021793
TCONS_00043220 other upstream 545939 31433579 ~ 31433663 (+) True XLOC_021791
TCONS_00043219 other upstream 546254 31433273 ~ 31433348 (+) True XLOC_021790
TCONS_00043209 other upstream 1000103 30979385 ~ 30979499 (+) True XLOC_021782
TCONS_00043240 other downstream 24947 32032765 ~ 32038219 (+) False XLOC_021802
TCONS_00043247 other downstream 93393 32101211 ~ 32107481 (+) False XLOC_021804
TCONS_00043259 other downstream 399377 32407195 ~ 32409927 (+) True XLOC_021810
TCONS_00043260 other downstream 404716 32412534 ~ 32421750 (+) True XLOC_021809
TCONS_00043264 other downstream 1111192 33119010 ~ 33119124 (+) True XLOC_021816

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000001_13266612_13285039.mRNA True 3944 mRNA 0.51 25 CI01000001 13266543 ~ 13285293 (+)