RNA id: TCONS_00017610


Basic Information

Item Value
RNA id TCONS_00017610
length 2948
RNA type mRNA
GC content 0.43
exon number 2
gene id XLOC_008917
representative False

Chromosome Information

Item Value
chromosome id NC_007126.7
NCBI id CM002899.2
chromosome length 48040578
location 1679962 ~ 1687204 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CCGAGATGTGGGAGTGGTGATTGCTGTGTTTATAACTGGTAGAGCAGCTTTGCAGCGGGCTCCACTGTCATCGCGTCCACTCCACACTGCAGCTTCGCCGCGGAGATCGGCGGTGTTTCTGCCTCCGCATGGACATGAAGAACATGAGAGAGTACATGAGCTGGCTCTACTACCAGTATCTGCTCATCACTGGGATCTATGTGCTGGAGCCGTGGGAGCAGTCTATCTTCAACACCGTGCTCTTCACTATGGTGGCCATGGTCATTTACACCTCCTATGTGTTTGTGCCCATCCACGTGCGGCTGGCGCTGGAGTTCTTCTGTGAGCTGGTCGGAGGACAGCCCGAAAGCACAGTGGCCCTCATGACCTGAAGATGCGGCAGCGTTTCGATCCATCACTCAGGAAAGAAAGCAGAAGCCAGATGAAATGAAAAGGTCTTTTTGCAAAAGCCCCTTCAAGTCTTCCACGTTTGACTCGCTTCCTGCTCCATCCTGGGAGTTTGCTATTCAATGGATTTTTAATGGGTGGTGCTTCGTATGGGACGTCTGCCGCAGACTGACTCAATGGCAATATTGAGATTAACAGGGAAGTTCActcaaataatgaaaatgtactctctatttactttccctcaagGGGTTCCAAAGCTTTAAGAGTTTCTTCTCGTTAAGAgtttactttcttctgttgaacactaaagatattgtgaagaatgctggaaaaccattgacttccatagtaggacaaacaaataccatggaagtcaatggtcagaGGTTTCCAGGATTATTTACAATGTCTCTCTTAGTGTATAACTGAAGAAAAGAGTGAAGTAAATGATGGTAGAAGTTTCATTTCTGAGTGAACGATCCCTGTAATGTCCTTGTCATCACTGGTTGATAATAAGGAAATCGTTATTCATAGTCATCTTCACACAGTTCGtgtaaacacatttgtttttattgtagccGCTTCAGGTTTGGTTTCTGTGCCGCCTTTGCAGTGTAAAGAAGCCTTATGACTCTGTATTAGGAGTCCTTGATCTGACTGAGATATGCTGATTTTATTTCCCTCACAAGgcatttattattacatatacatttttataattctttattttataatcatCTATGCAATGTGTGACCGGTGCACATGAAGATGCAGCACATTCTCAATGCTGACACTTTTACAATCCCACCCACTGCAGCGTGGAGGTGTGTGAAAACAGTATACCGTCACTCGAtcattttgacttgtttttacCCTCAAGAACGTTCCTCGTTTGAAGTATACCAGGACCTTTAGTGAGACGTGATTGGTTGAAAACAGCGCACACGCTGAGGTCATAGTGCGAACACCGATTGAATCATCCACATGACCACACTGTACTCAGAGTTTTATACACTCTACAGAAAGTTTGGGCTTCAGTCACCTGACACTGCATTTTTGTGTGGACAAACGGTGAAACCGCATAAAAAAGTGCGACTCTGAAAACACCCGTGTTCATGTGGACAGGGCCTGAGCATCAACATGTGACGAATCTGCAGTGAGAATGTTGAAAGATATGGTGAAGTTCATTTATAAAcgaatttcgagaggatcacgtgcttagctgttccaactttagctaattaTCCTACTAGATGTTCTTTAACTCTCATCTCGAAATCTTCGTCTTGAAGAtaccccccccacccaaccctactttccctcctttcaaacggtgGCCATTGATTagagctgttgcctcacagcaagaatgcccctggtttaatccCCTTccaaaccaggcaacatttctgtgcggagttttgctcgttctccccgtgatcgCGTGGGAGTcgtccggtttcctcccacagtccaaaaacaagccccctaaacaattaatccaaaatattttagccgaactctgagtacaccttctcagcatccatatctgacacttagctacaataagcaagagggggagtcatcgagatctacctgagctcaaactcccctctcgccttgcaacgggagggagcccagggctcgaggatcttataagctcagggctctttcccgggacagcacgccaaacaagcgtTCTTATCAATcataagctaagtgtgaactcttgaaagcaggTTTAACGTGCGCTGCACTCGATCACAGCTCTTTGAATGCTCGTCATCCATCGCTCCTGCCGTCTGATATAGAGTTGCATCAGTTGTTTGCATGACATCTGGAGGTTTTCATCAAATTATTGGCACTTGAATgttcattgtaatgttttcaacTACTAATAAGAATGTAGTTATGTTAGCCGAGAGGCTGAACACATTTTAAATCCTGCTCACAGATTTCCCAGCtaatctagagcagtggttctcaaagtgggggtcgggaccccctggggggtcacgggacaatgacaaggggtcacTTGGGGatatccaaaactcaaataaatgttattaaactattaaaattaccatattttattcataaccgacCGAAtataaagaaacaacaacataaaaataacaatcagccatcagcctttaattttcaaagcaaaatgtaattaaatccataaatgactttaaaaaacattatctggctaatagactgttgcatttttgtgttgtcaataagctcatgtttatatttgcctatagttgtctgcaacgtttacatatttacagtacaaacaccttgaaaaatgggggtcgcgagccactgatatgattatttttggggtcacaggctgaaaagtttgggaacccctgatctagagcaCTGTTTTGCTGAGTTATGAATGGTTATCAAAGTTTGTTTCAGCTTTAAgtgatgtttttgtatttttcttaacTGTCAATGTGACGCCATGAGATTCCTCTTGATTTGATGACAACTTTTACATGGGTATAAtgtatttttgagaaataaaagaaTTCGCCATA

Function

GO:

id name namespace
GO:0046513 ceramide biosynthetic process biological_process
GO:0006629 lipid metabolic process biological_process
GO:1904220 regulation of serine C-palmitoyltransferase activity biological_process
GO:0030148 sphingolipid biosynthetic process biological_process
GO:0006665 sphingolipid metabolic process biological_process
GO:0007029 endoplasmic reticulum organization biological_process
GO:0005783 endoplasmic reticulum cellular_component
GO:0017059 serine C-palmitoyltransferase complex cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0004758 serine C-palmitoyltransferase activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-060421-6887 Predicted to contribute to serine C-palmitoyltransferase activity. Predicted to be involved in ceramide biosynthetic process; endoplasmic reticulum organization; and regulation of serine C-palmitoyltransferase activity. Predicted to act upstream of or within sphingolipid biosynthetic process. Predicted to be located in endoplasmic reticulum and membrane. Predicted to be integral component of membrane. Predicted to be part of serine C-palmitoyltransferase complex. Orthologous to human SPTSSB (serine palmitoyltransferase small subunit B).

Ensembl:

ensembl_id ENSDART00000155579

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00017607 lncRNA downstream 68269 1606849 ~ 1611693 (-) False XLOC_008915
TCONS_00017604 lncRNA downstream 89167 1589813 ~ 1590795 (-) False XLOC_008914
TCONS_00017602 lncRNA downstream 145743 1523472 ~ 1534219 (-) True XLOC_008912
TCONS_00019111 lncRNA downstream 536893 1140445 ~ 1143069 (-) True XLOC_008908
TCONS_00019110 lncRNA downstream 671603 1007600 ~ 1008359 (-) True XLOC_008903
TCONS_00017613 lncRNA upstream 34383 1721587 ~ 1725484 (-) False XLOC_008918
TCONS_00017624 lncRNA upstream 143066 1830270 ~ 1834822 (-) False XLOC_008922
TCONS_00017629 lncRNA upstream 167819 1855023 ~ 1885239 (-) True XLOC_008923
TCONS_00017640 lncRNA upstream 636462 2323666 ~ 2328145 (-) False XLOC_008928
TCONS_00019112 lncRNA upstream 636462 2323666 ~ 2328284 (-) True XLOC_008928
TCONS_00017609 mRNA downstream 28196 1630815 ~ 1651766 (-) True XLOC_008916
TCONS_00017606 mRNA downstream 57477 1596508 ~ 1622485 (-) False XLOC_008915
TCONS_00017608 mRNA downstream 57494 1610224 ~ 1622468 (-) True XLOC_008915
TCONS_00017605 mRNA downstream 89104 1589813 ~ 1590858 (-) True XLOC_008914
TCONS_00017603 mRNA downstream 95825 1574356 ~ 1584137 (-) True XLOC_008913
TCONS_00017612 mRNA upstream 31464 1718668 ~ 1733235 (-) False XLOC_008918
TCONS_00017614 mRNA upstream 40287 1727491 ~ 1733259 (-) True XLOC_008918
TCONS_00017615 mRNA upstream 47240 1734444 ~ 1745408 (-) False XLOC_008919
TCONS_00017616 mRNA upstream 47249 1734453 ~ 1746963 (-) True XLOC_008919
TCONS_00017617 mRNA upstream 62639 1749843 ~ 1765137 (-) False XLOC_008920
TCONS_00017597 other downstream 358056 1321790 ~ 1321906 (-) True XLOC_008910
TCONS_00017537 other downstream 1254206 425695 ~ 425756 (-) True XLOC_008873
TCONS_00017535 other downstream 1330395 349451 ~ 349567 (-) True XLOC_008870
TCONS_00017627 other upstream 147767 1834971 ~ 1837883 (-) True XLOC_008922
TCONS_00017639 other upstream 578765 2265969 ~ 2266083 (-) True XLOC_008927
TCONS_00017647 other upstream 937824 2625028 ~ 2625663 (-) True XLOC_008933
TCONS_00017655 other upstream 1049179 2736383 ~ 2736498 (-) True XLOC_008940
TCONS_00017689 other upstream 2417204 4104408 ~ 4104526 (-) True XLOC_008968

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) TU348023 True 303 lncRNA 0.40 1 CI01000092 4712435 ~ 4712737 (+)
tiger barb (Puntius tetrazona) TU154112 False 1307 lncRNA 0.47 2 NC_056713.1 7621713 ~ 7624404 (+)