RNA id: XM_026926889.2


Basic Information

Item Value
RNA id XM_026926889.2
length 1720
RNA type mRNA
GC content 0.44
exon number 6
gene id smndc1
representative True

Chromosome Information

Item Value
chromosome id NC_047604.1
NCBI id CM018550.1
chromosome length 29376037
location 24443797 ~ 24449962 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

GTCCCAACGCGGAAAACGTCACTTCCGGTTGCTCGTAGTGTTGTCGTCGGAGAGGAGAAAGGACACAACCAAACCGTCCATTTTCACCAGATTCTAAGTGTACATGGGCGATTCAAAGCGACATTAGCGTTTGACTAGATCGTAAAGAGTGGTGTTTTGGAGCACACAGAGAGATGTCGGACGAGTTGGTGAAACAACTGAGCAGCTACAGAGCTCAGCTCCAGCAAGTGGAAGCAGCGCTCTCTACAGACCCAGAAAATGAAGATCTGCTGAAGTTACAGAAAGACCTGCAGGAGGTGATCGAGTTGACAAAAGACTTGTTGACGTCTCAGCCAGCAGAGGGCGTAGCTAGCACCAACAGTTCAGATGCCGCGCCACCGAAACACAGCTGGAAAGTAGGAGATCGTTGCATGGCTATGTGGAGCCAGGATGGACAGCAGTACGAAGCAGAGATAGAGGAGATCGACAGCGAGAACGGCACAGCTGCCATCACCTTCACCGGCTATGGCAATGCCGAGGTGGTGCCTCTGCACGCGCTCAAAGCAGCTGAGCAGGCCAAGAGCAGCAAGGAGGAAGGAAGCAGACCCAAGtccaaGAAGGAGCTGCAGGCAGAGCAAAGGGAATACAAGAAGAAAAAGGCACAGAAGAAAGTGCAGAGGATGAAAGAGCtggaacaagagagagaggacCAGAAATCCAAATGGCAGCAGTTCAACAATAAAGCTTATTCAAAGAACAAGAAGGGTCAAgtaaaacGCAGTATATTCGCCTCTCCGGAGAGCGTGAATGGAAAAGTCGGTGTGGGTACGTGTGGGATTGCAGATAAACCCATGACTCAATATAACGACACGTCCAAATACAACGTGAGGCATCTGATGCCACAGTGAGGTGTTTGTGTCTGCGCTCACCCCCACCCCAAAAGAACAGCTGGTGGAGCATCCGACCTAGTTCTGGACACTGAACGGAACCAGCTATATAATTCcaccatgtttttattttgggacTTGGAAAAGATGTTATTTTGAGACGTAAGAAAAAGAAGTAGCCTAGCTGTTTATTGGAATTCATAAGTTATGAGTACGAGACTGCAGCTCCAATGCTTTACAGCTCAAAACTAAACCATAACCTCATATCAACATAACCTCCACTGGAAGACAACCTGAAACTATTGATCCAGCAGCTTGCTCTCAAGAGTAAGCCTGGgatgtgtgaatatatatatataacatacatCATTCAATTGGTTCATATTATTAAGCCAAGGCAACTGGACCTGACGTTTTGCCACTTGTATTGGAGGCTGAATCAGATTCGGCATTTGTTTCTGTAGAATGGTTGTCAGTATATCTAATGGCCTTCATgtacacataatacacaataatcTTTAGTTTGGGTGAAAATTGCAACCATACAACTATTCCAGTGGAGATAGGAACTCTGATTTTTAGTATTTAAACTTTTTGATACGCAATAAATGCATTAAGATGCTTCTGGGTGAAGTGAGTTTGAAAATATCTCTTCTGAGATTTTCACTTGAATAACCTGAGAGACTGTTTAGTTTATGTGCTTATTGTgtgtcaaaaatattttctaaaatgtcagaGTCCTATACATCCCTACGTGTGTCACCATTTTGTGGAATGAATTTTCTGTTGTCGGTCTTAATTTTGCTTTAAAGTTTTGTACACCTTTACAAggaataaagatttttttgtatCTG

Function

GO:

id name namespace
GO:0006397 mRNA processing biological_process
GO:0008380 RNA splicing biological_process
GO:0015030 Cajal body cellular_component
GO:0016607 nuclear speck cellular_component
GO:0005681 spliceosomal complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0003723 RNA binding molecular_function

KEGG:

id description
K12839 SMNDC1, SPF30; survival of motor neuron-related-splicing factor 30

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU202417 lncRNA downstream 159396 24284009 ~ 24284401 (-) True G171056
TU202385 lncRNA downstream 195782 24247685 ~ 24248015 (-) True G171028
TU202284 lncRNA downstream 408899 24034508 ~ 24034898 (-) True G170936
TU202233 lncRNA downstream 445086 23995566 ~ 23998711 (-) True G170887
TU202202 lncRNA downstream 524774 23918425 ~ 23919023 (-) True G170866
TU202581 lncRNA upstream 18261 24468223 ~ 24469486 (-) True G171175
TU202589 lncRNA upstream 64947 24514909 ~ 24543974 (-) False luzp1
TU202594 lncRNA upstream 78365 24528327 ~ 24528696 (-) True G171184
TU202651 lncRNA upstream 148313 24598275 ~ 24655253 (-) True G171232
TU202688 lncRNA upstream 316948 24766910 ~ 24801063 (-) True G171258
XM_026926039.2 mRNA downstream 3543 24431395 ~ 24440254 (-) True samd8
XM_034307735.1 mRNA downstream 5718 24431395 ~ 24438079 (-) False samd8
XM_026926577.2 mRNA downstream 35015 24403823 ~ 24408782 (-) True dnal1
XM_034307756.1 mRNA downstream 42238 24391053 ~ 24401559 (-) False tedc1
XM_026925988.2 mRNA downstream 42239 24391053 ~ 24401558 (-) False tedc1
XM_026926874.2 mRNA upstream 4439 24454401 ~ 24462936 (-) True tmem30b
XM_034308381.1 mRNA upstream 40276 24490238 ~ 24544079 (-) False luzp1
XM_034308380.1 mRNA upstream 40276 24490238 ~ 24544079 (-) False luzp1
XM_034308379.1 mRNA upstream 40276 24490238 ~ 24544079 (-) True luzp1
XM_034308382.1 mRNA upstream 40276 24490238 ~ 24537835 (-) False luzp1
TU201673 other downstream 1580030 22855494 ~ 22863767 (-) True G170435
TU201211 other downstream 2327921 22115565 ~ 22115876 (-) True G170023
TU200304 other downstream 3626581 20814561 ~ 20817216 (-) False grem1b
XR_003403127.1 other downstream 3710745 20732930 ~ 20733052 (-) True LOC113530231
TU200198 other downstream 3877998 20564929 ~ 20565799 (-) True G169119
TU202681 other upstream 351121 24801083 ~ 24807095 (-) False G171256
TU203072 other upstream 808877 25258839 ~ 25259209 (-) False G171569
TU203074 other upstream 808877 25258839 ~ 25259362 (-) True G171569
TU203284 other upstream 1128977 25578939 ~ 25582527 (-) True G171734
TU204658 other upstream 3449529 27899491 ~ 27910890 (-) True si:ch73-204p21.2

Expression Profile