RNA id: TCONS_00003682


Basic Information

Item Value
RNA id TCONS_00003682
length 2109
RNA type mRNA
GC content 0.43
exon number 15
gene id XLOC_001858
representative False

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 5234327 ~ 5265160 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GGAAGTCGCGCAGAGCGATCATGTGACTCAGTCAAAATGGCGTCGGGGCAACAGTGGGTGTTGGTGGAGATGGTGCAAGCTTTTTACGAGgCCCCAGCATATCACTTAATTTTAGAAGGTTTTCTCATTTTATGGATTATCCGACTGCTGTTTTCCAAAACGTATAAACTTCAGGAGAGATCAGACCTCACAGAAAAGGAGAAAGAGGAGTTAATTGAAGAGTGGCAACCCGAACCGCTGGTCTCCCCCGTATCTAAAGACCACCCTTCCCTCAATTATGATGTGGTCACAGGGCCTCCAAGCCACAAAATCATTGTAAATGGCAAAGAGTGCATTAACTTTGCCTCGTTTAACTTCTTGGGTCTGCTTGACAATGAGCGCGTGAAGTTGAAGGCATTGGCGTCACTCAAAAAATATGGCGTGGGAACTTGTGGACCAAGAGGATTCTATGGGACCTTCGATGTTCATCTGGAGTTAGAGGAGCGATTAGCGAAGTTCATGAGGACGGAGGAGGCCATTATCTACTCGTACGGCTTCGCCACCATCGCCAGTGCCATTCCAGCTTACTCCAAACGAGGAGACATCATCTTTGTTGATGAAGCAGCCTGTTTCTCTATTCAGAAAGGCCTTCAGGCGTCACGCAGCTTCATTAAATACTTCAAACACAATGATATGGAGGATCTTGAACGCCTTCTGAAGGAGCAAGAGATTGAAGATCAGAAGAATCCGCGTAAGGCAAGAGTGATCCGGCGATTCATTTTAGTCGAGGGTCTCTACATCAACACTGCAGATATCTGCCCACTGCCTGAACTGGTAAAATTGAAGTACAAATATAAAGTGCGAATCTTTCTGGAGGAGAGCATGTCTTTTGGAGTGCTTGGCGAACACGGAAGAGGAGTCACAGAGCATTTTGGGGTCAACATCGACGATATTGACCTCATAAGTGCAAACATGGAGAATGCGTTGGCATCCATCGGAGGTTTCTGCTGTGGAAGATCATTCGTTATTGATCATCAGcGTTTGTCAGGTCAGGGTTACTGTTTCTCAGCATCTCTTCCCCCCATGCTGGCTGCTGCTGCTATCGAAGCCCTGAACATCATGGAGGAAGATCCAGGAATTTTCAGGGTTCTGCGGGAGAAGTGCAGAAATGTTCACAAAGCACTACAAGGGACCGCAGGGCTGAAAGTAGTGGGTGAGTCTTTTGCTCCGGCTCTTCATCTACAGCTGGAAAACAGCACAGGATCCCGAGTGAATGACCTGAAGCTGCTCCGAGCCATTGTCGATTACAGTTTGGACAGACAGGTCGCACTAACGTTGGCTCGCTACCTGGACAAAGAAGAGCGCTTTCTTCCACCGCCAAGCATTCGAGTAGTTGTGACCGTCGAACAAACGCAGGAGGAAATCGAGAAGGCAGCACAGTGTATTCGAGAAGCAGCTTTACATGTTCTGAAATGAAGACCAGTCGCTTCAACATCCATCACACACGCACACCGTAAAGCTTTAAAAGTGTCATCACTGACCGGAGGAAGGAAAGCGAGAGCCTGGCAGGTTCTGTGACCTTTGACCTCAGAGAAATACACTCggattgtttgtatatttatgtttggtGTACAGAAAATGTGGATTATTTTAGTAGTCTTCATTTCACATTGAAATAAATGCAATTGACTCCCGACACTCTCATGTGCAGCATCAAACCCGTTTATGTTCTGTTCAAAGCCTTGAAAAACCTTGAAATCTTTACTAATCAATGGTAATTATAGCTTTTATATACACAAGTATCTTTTTATGTACACTAGTATTTACATTCTTTTGTAACCTTTGACCAAAGAGATGCTTCTTTACCACATTTCAGAATATTTATGCCttgaatgtgattttttttttctaatttctttCTGTCAGGATCcataaattaattattgttataattattgttgTAATTTTGGACTTTTTGGTAATGAATGCTATGTGAATGTACTCCGCATTTGTCATTTTCTTGCACTCATTCAGCGGAGATCTTAAATATGGTCTGGTTTTGAATCTGTAATTGTCAAAATGTATGTAAATTCAAAGAATAAAACACATTTCAgtctttatataaataaa

Function

GO:

id name namespace
GO:0046512 sphingosine biosynthetic process biological_process
GO:0046513 ceramide biosynthetic process biological_process
GO:0009058 biosynthetic process biological_process
GO:0005783 endoplasmic reticulum cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0004758 serine C-palmitoyltransferase activity molecular_function
GO:0030170 pyridoxal phosphate binding molecular_function
GO:0003824 catalytic activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-050522-61 Predicted to enable serine C-palmitoyltransferase activity. Predicted to be involved in ceramide biosynthetic process and sphingosine biosynthetic process. Predicted to act upstream of or within biosynthetic process. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in endoplasmic reticulum. Human ortholog(s) of this gene implicated in hereditary sensory and autonomic neuropathy type 1A. Orthologous to human SPTLC1 (serine palmitoyltransferase long chain base subunit 1).

Ensembl:

ensembl_id ENSDART00000133927

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00005675 lncRNA upstream 77 5232327 ~ 5234250 (+) True XLOC_001857
TCONS_00003678 lncRNA upstream 81926 5149469 ~ 5152401 (+) False XLOC_001855
TCONS_00003677 lncRNA upstream 82281 5149380 ~ 5152046 (+) False XLOC_001855
TCONS_00005674 lncRNA upstream 242289 4987766 ~ 4992038 (+) False XLOC_001851
TCONS_00003667 lncRNA upstream 269217 4964510 ~ 4965110 (+) True XLOC_001849
TCONS_00005817 lncRNA downstream 262030 5527190 ~ 5543141 (+) False XLOC_001863
TCONS_00005816 lncRNA downstream 262030 5527190 ~ 5543141 (+) False XLOC_001863
TCONS_00003688 lncRNA downstream 264574 5529734 ~ 5543090 (+) True XLOC_001863
TCONS_00005676 lncRNA downstream 322800 5587960 ~ 5588230 (+) True XLOC_001864
TCONS_00005818 lncRNA downstream 523247 5788407 ~ 5793526 (+) True XLOC_001867
TCONS_00003680 mRNA upstream 12790 5159475 ~ 5221537 (+) False XLOC_001856
TCONS_00003681 mRNA upstream 12790 5203532 ~ 5221537 (+) True XLOC_001856
TCONS_00003676 mRNA upstream 77528 5149359 ~ 5156799 (+) False XLOC_001855
TCONS_00003674 mRNA upstream 86773 5135842 ~ 5147554 (+) False XLOC_001854
TCONS_00003673 mRNA upstream 90039 5135842 ~ 5144288 (+) False XLOC_001854
TCONS_00003684 mRNA downstream 2894 5268054 ~ 5407509 (+) True XLOC_001859
TCONS_00003685 mRNA downstream 144348 5409508 ~ 5410985 (+) True XLOC_001860
TCONS_00003686 mRNA downstream 149064 5414224 ~ 5419256 (+) True XLOC_001861
TCONS_00003687 mRNA downstream 157415 5422575 ~ 5475690 (+) True XLOC_001862
TCONS_00003689 mRNA downstream 379196 5644356 ~ 5655109 (+) False XLOC_001865
TCONS_00003679 other upstream 81926 5151349 ~ 5152401 (+) True XLOC_001855
TCONS_00003675 other upstream 86745 5135842 ~ 5147582 (+) True XLOC_001854
TCONS_00003668 other upstream 246844 4986050 ~ 4987483 (+) True XLOC_001850
TCONS_00003658 other upstream 740969 4493277 ~ 4493358 (+) True XLOC_001842
TCONS_00003646 other upstream 1825427 3408783 ~ 3408900 (+) True XLOC_001830
TCONS_00003693 other downstream 479763 5744923 ~ 5769612 (+) False XLOC_001866
TCONS_00003731 other downstream 1818611 7083771 ~ 7210108 (+) False XLOC_001887
TCONS_00003739 other downstream 2308156 7573316 ~ 7578051 (+) True XLOC_001890
TCONS_00003759 other downstream 3078028 8343188 ~ 8343305 (+) True XLOC_001906
TCONS_00003778 other downstream 3597361 8862521 ~ 8868895 (+) True XLOC_001921

Expression Profile

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