RNA id: TCONS_00003701


Basic Information

Item Value
RNA id TCONS_00003701
length 3182
RNA type mRNA
GC content 0.46
exon number 10
gene id XLOC_001870
representative False

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 6010570 ~ 6034397 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ATCTGACCTTATGAGATATCCGGACCGGACAGCTCTCCGAATCTAACCGTCCGCTTATTACACGAACCAACACCGTTATATGATTGTAAGTCCATTCAGAATGCCTGGATCACTCCCTGCGATTTGCGAGTCCATGTGGCCCAAAGATGTGGGAATCATCGCTATGGAGGTGTATGTCCCATCTCAGTACGTTGACCAAGCAGAGCTGGAGGAGTATGATGGAGTCGGGGCCGGAAAGTACACTGTTGGTCTGGGACAGGCGCGCATGGGATTCTGCTCGGACCGCGAGGACATCAACTCTCTGTGCTTGACAGTGGTGCAGAGGTTAATGGAGAGGAACGGCCTCTCGTACGAGAGCGTGGGCCGGCTGGAGGTGGGCACAGAAACCATCATCGACAAGTCCAAATCCACCAAGACTGTCCTGATGCAGCTGTTTGAAGAGTCGGGCAACACTGATGTGGAGGGAGTGGACACCACTAACGCCTGCTATGGGGGTACCGCTGCACTCTTCAATGCCGTCAACTGGGTGGAGTCCAGCTCATGGGACGGTCGTTACGCTCTGGTTGTTGCTGGTGATATTGCTGTGTATGCCACGGGCAGCGCCAGGCCTACAGGGGGAGCCGGAGCTGTGGCCATGTTGGTTGGACCAAATGCCCCTCTGGCCTTCGAGAGAGGGCTTCGTGGGACACATATGCAACATGCGTATGATTTTTATAAGCCGGACATGGTGTCGGAGTATCCAGTGGTGGATGGCAAGCTTTCCATCCAGTGTTACCTCAGTGCTTTAGATCAATGCTACTCCGTCTACAAGAACAAGATCCATGCCCGCTGGCAAAGAGAGGGGACTGAAGGGCGTTGTAGTCTTGAAGACTTTGGCTTCATGGTGTTCCACTCTCCTTACTGTAAACTGGTCCAGAAGTCTTTGGCTCGTCTAATGCTCAACGATTTCCTCTGTCATCCCAGTCCAAACATGGAAAGCGGCCCATTTAGCGGACTGGAAGCTTTCAGAGATGTAAAGATTGAGGACACTTATTTTGACAGAGATGTGGAGAAGGCCTTTATGAAAGCCAGTTCTGAACTGTTTGATGACAAAACAAAGGCATCTCTCCTTATATCAAACCAGAATGGCAACATGTACACCCCCTCAGTGTACGGCTGCTTGGCTTCAGTTCTTGCACAGCACACACCACAGCAGTTAGCAGGACAGAGAATTGGTGTGTTTTCTTATGGCTCGGGCTTCGCTGCTACACTTTACTCCATCAAAGTCACTCAAGATGGCACACCTGGCTCTGCTCTGGATAAGTTGGTCTCCAGCTTGTGTGACTTGCCGGCCAGACTGGACTCTAGGCAGAAGGTTTCACCGGGTGTTTTTGCTGAGACAATGAAGCTCAGAGAAGAAACCCACCATTTAGCAAACTACATCCCTCAAGGCTCAGTAGATGAGCTTTTCCCGGGAACATGGTACCTCACTCGTGTGGACGAGAAGCATCGCAGACAGTATGCCAGACGATCCATGAATGATGACAGACCCCTGGAGGCCGGACTGGTCAGTTCCAGCATGGCAGCTGAGCATATTCCCAGTCCGCTCAAGAAGATGCCCCGTATCCCCACTACCACAGCTGGCCCTGAGGTGGTCGTCATGAGCAACGGGGATCATTAAGTTCACCTCTGTGAGGTGCGCAATATGGCAGATCACAGCGAGGACACGTGATCTGTGGAGGAAAAAGGGCCCCAGGACTTCTGCAGCTATATCACCGATCAGCGAGTGGTAGAAAACCTcaaagctttttaaatgttccagGACAGAATTAGTTTGACCGTCACTGTGTTGAAGATGGCAAAGGGTAGTTTAGTACATGGGAAGATTTGTCTGTGGTGAACTTCCACAAACTGCTGCTCAGAGTCGTCTATGCAGAAACTCGTTTAATCCTTTTAAGTTCAAATGTCCCCCTGCTGGCATTTCACAAGCTCTGTGTTTTAGCATGAGGCTAATCCTATCGTTTAAAATGGATGATGCTTGAGGGGGCCGGCGCATCGAACCTCGAAGCATCCCTAATTGTTTTTAACTGAAGTAAAACCTGTTGTCTGTATCGTTAGGTCCGCGTCagaatttcttttaaaaactttttctaGTCAGTCTTACCGCCATGGCCATGTCAGGGAAATGTGCCTGGATCACATATATTTATGAGCCATACAGTTTTAATTTCAAAGATTTATATAGTGATTGTTTAGTTGCTGCTAAACTGGCATATTTTAGCTTTTATGTCGTTTGAAACGAGAATCGTTTTGGATTTTCTTTCTTGCAAAAGTTGATGGTGTTCATGTTCAACATTTATTGTTGAGGACTAGGCCAAAATCGATGAAAGTTGTAATAATCGGTCATCTTTTGAACCGTCGTAGATTTAAAAAAGACACCACTGTCATGTCATCCATTAACCCAATTGGCATCATCCCTAATTCCACATTGTTGATCTGTTGATAACCTGCAACGATTTCATGAGCTCAAGTGATCAAAAACGTTTGATTGTCGCAACCACAAAGCACTTCTCGGTAACCATTTGAACGTCAAGATTTTGTGGTAGGGGAGAAGCAATATAAACAGTAATAATATAAATCGTAAACAGTAGCACCTTAAAATCTTGATGTTAAATATAGACTATTATAAGCTAAAAGCAAACCAGAGAGATTATAAAGCTAATTGCTGAAACACTGATAGCGAGATGGTATTTCCTTTATGAACATTCTTCAGTCCGTGGGTCCATGCTAAcatctgaagaagaaaaaaaaaacagcacttcTGGTCCAGCTGCATATCCATCAACCTCCAGAAGCCTTATTTTAACCatgtacaaaacacacacacacacacacacacacacacacacacacacacagataaaaagGGTTTATTTTGGCTAAATTGTACAGagatttttcttttcattctgctgCCAGGACATGTTGACTGTAAAGTTATAACTTGAAACAGCCAATGTTTACAAGACGTTTCCCAGAGATCAGCAATGTACAGGACTAACTTATATTTGTGGATGgactaaacaacaacaaattgTGCCCATCAGGTGGAATTTGTAGCAAAGCAAGCTGTACAGACAATGTCAAAACTCTGTGGGAATCTGCTCGTATATGAACTGAGGATTAAAGGTTCATTTGCTGAA

Function

GO:

id name namespace
GO:0006629 lipid metabolic process biological_process
GO:0006084 acetyl-CoA metabolic process biological_process
GO:0016126 sterol biosynthetic process biological_process
GO:0010142 farnesyl diphosphate biosynthetic process, mevalonate pathway biological_process
GO:0008202 steroid metabolic process biological_process
GO:0048821 erythrocyte development biological_process
GO:0006694 steroid biosynthetic process biological_process
GO:0014003 oligodendrocyte development biological_process
GO:0014033 neural crest cell differentiation biological_process
GO:0008299 isoprenoid biosynthetic process biological_process
GO:0048703 embryonic viscerocranium morphogenesis biological_process
GO:0005575 cellular_component cellular_component
GO:0016740 transferase activity molecular_function
GO:0003824 catalytic activity molecular_function
GO:0004421 hydroxymethylglutaryl-CoA synthase activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-040426-1042 Predicted to enable hydroxymethylglutaryl-CoA synthase activity. Acts upstream of or within animal organ development and oligodendrocyte development. Is expressed in several structures, including digestive system; immature eye; nervous system; pectoral fin musculature; and yolk syncytial layer. Orthologous to several human genes including HMGCS1 (3-hydroxy-3-methylglutaryl-CoA synthase 1).

Ensembl:

ensembl_id ENSDART00000167613

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00005677 lncRNA upstream 131843 5880700 ~ 5881233 (+) True XLOC_001868
TCONS_00005818 lncRNA upstream 219550 5788407 ~ 5793526 (+) True XLOC_001867
TCONS_00005676 lncRNA upstream 424846 5587960 ~ 5588230 (+) True XLOC_001864
TCONS_00005816 lncRNA upstream 469935 5527190 ~ 5543141 (+) False XLOC_001863
TCONS_00005819 lncRNA downstream 81897 6116294 ~ 6116936 (+) True XLOC_001871
TCONS_00003709 lncRNA downstream 306071 6340468 ~ 6350276 (+) False XLOC_001873
TCONS_00005820 lncRNA downstream 594222 6628619 ~ 6628997 (+) True XLOC_001877
TCONS_00005821 lncRNA downstream 610000 6644397 ~ 6644775 (+) True XLOC_001878
TCONS_00005822 lncRNA downstream 650021 6684418 ~ 6684796 (+) True XLOC_001880
TCONS_00003696 mRNA upstream 8213 5954787 ~ 6004863 (+) False XLOC_001869
TCONS_00003698 mRNA upstream 8317 5954800 ~ 6004759 (+) False XLOC_001869
TCONS_00003697 mRNA upstream 8317 5954800 ~ 6004759 (+) True XLOC_001869
TCONS_00003692 mRNA upstream 225790 5689525 ~ 5787286 (+) False XLOC_001866
TCONS_00003695 mRNA upstream 226409 5744941 ~ 5786667 (+) False XLOC_001866
TCONS_00003704 mRNA downstream 87161 6121558 ~ 6313106 (+) False XLOC_001872
TCONS_00003705 mRNA downstream 87161 6121558 ~ 6313905 (+) True XLOC_001872
TCONS_00003706 mRNA downstream 283830 6318227 ~ 6363374 (+) False XLOC_001873
TCONS_00003707 mRNA downstream 283860 6318257 ~ 6359743 (+) False XLOC_001873
TCONS_00003708 mRNA downstream 283951 6318348 ~ 6375394 (+) False XLOC_001873
TCONS_00003693 other upstream 243464 5744923 ~ 5769612 (+) False XLOC_001866
TCONS_00003679 other upstream 860675 5151349 ~ 5152401 (+) True XLOC_001855
TCONS_00003675 other upstream 865494 5135842 ~ 5147582 (+) True XLOC_001854
TCONS_00003668 other upstream 1025593 4986050 ~ 4987483 (+) True XLOC_001850
TCONS_00003658 other upstream 1519718 4493277 ~ 4493358 (+) True XLOC_001842
TCONS_00003731 other downstream 1049374 7083771 ~ 7210108 (+) False XLOC_001887
TCONS_00003739 other downstream 1538919 7573316 ~ 7578051 (+) True XLOC_001890
TCONS_00003759 other downstream 2308791 8343188 ~ 8343305 (+) True XLOC_001906
TCONS_00003778 other downstream 2828124 8862521 ~ 8868895 (+) True XLOC_001921
TCONS_00003779 other downstream 2835071 8869468 ~ 8880126 (+) False XLOC_001922

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000304_01560571_01565345.mRNA True 4694 mRNA 0.41 9 CI01000304 1560368 ~ 1568276 (-)
bowfin (Amia calva) AMCG00010632 True 2441 mRNA 0.57 12 CM030129.1 37645936 ~ 37651289 (-)