RNA id: TCONS_00017827


Basic Information

Item Value
RNA id TCONS_00017827
length 1805
RNA type mRNA
GC content 0.50
exon number 1
gene id XLOC_009046
representative True

Chromosome Information

Item Value
chromosome id NC_007126.7
NCBI id CM002899.2
chromosome length 48040578
location 11679759 ~ 11683529 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CACTGTCCACTTTCAGCATCACTTTTGGCCAGACTAGGATGTTAATGTTGAGGTTTTCACTAATTTGGACATGTTATGACATTCAGAATAATCTGAGATTTCATTTACTCTTTCTGCCATAAAACCACAAGAGCCATAATGCGTATCAGTTTTTGCCAGGCTCTGTTAACTGGAGCAATCATTTTAAACTTGCTCATCTTGTATTATGTCTCGCGGGCTCAGCAGCAAATGATGGAGAAGCGTCGAGAGCAAGGTAAAGGCTTAAAGAAAGCCTCTCTTCCTGTGTCAGGCCTAGGAGCGATGGGTAACCTCGTTGGTGGAAGCATGGTTGGAGGTGTTAAATTAGGAGGTCTTGAGGGAAACATGCGTGGTCCACGCGTCACGATCCTGGTTCGGGAATTTGAAGATTTTGAAAACTATGTTGGTGATGTTGCACGCTCCTTTCTGCGGCAGAGACCAGAATTACCCTTCCTCGCAGTTGCTGAAAATTCACCGTACCCTCCTTTGGCTCTTCCAGAGGGAGCACGGCTGCTGGTGATGTCCCCAAGTCCTGACCAGCCTCCACAAACTCACCGTCCCGAGTTCAACGTGCAGACAGAGTTTTCTTTGTTAGTTCCTGATGGTGTGGAGCTGGACCATGGTCGACAAGTTGAGCGTCTCATTCGGGAGCTGGAAGGGGAAGGTGGTGGGCCGGTCCGACTGGTTGCTGCACCAGTGCTGACCCGCTCTTCAGTGCAGTGCCTTCATCTTCGGGTCAATCTGCGGGAATGGACTGCCACTTACAGCCCTGCGGCCTCAGGGAGCAGTGGTAGCGTCTGCACAGCTCTGCAGGGAGACGCTGTTGTTCTTATTCGCACCGAGGACCTCTTCAATCTCTCAGTTCCCTTAGGGCGCCCCCTGATGTCTTCCTTGTTTGTCCAAACTTCTCTTCGAGGCTGGAaggtcaaactcctggagggacCTTCATTCTCAGCCAGTCATCGGCCTTTGTTTAGCTCTGCACACAACCAGTGGAAAGCTGATAGTCGCCTGAAAGATGCCACTAATCACCTCATGCGCAGCTTTGGCCTGAAGCGCCTGATCTTGCCTGATGGTAGAGATCAGTGGTTTGGCTGCAGTAAAGAGACTGCGCGATGTTTCGGGACAGTTCGAGATGACACACCGGAATATCTTTACATTGAGCGCTGGACTCCACCTTGCTGCTTACGTGCCCTCAGAGAGACCACTAAATACGTGATCAACATTCTCGAAAGCTCTGGTGTGCGCTACTGGCTGGAAGGGGGATCCTTATTGGGAGCTGCCAGACACCAAGATATAATCCCATGGGACTATGATGTAGACTTGGGCATCTACTTGGAGGATGTCCCAAATTGCGACTACCTAAAGAATCTTGACTCTGGTTCTCTGGTTGATGCTAACGGCTATGTGTGGGAGCGAGCTGTTGAAGGCGATTTCTACCGTGTTCAGTACAGCGAAACCAACCATTTGCATGTTGATTTATGGCCATTTTACCCCCGTAATGGAGTTATGACCAGGGACACTTGGACTGAGCACAAACAAGATGTGGAGTTCTCAGAGCATTTCCTGCAACCCCTGGTGCCAATGCCATTTGCTGGCATTACCACTTATGGTCCGAACAACCATCGTGCCTTCTTGGAACTCAAATTTGGAGAAGGGGTTATTGAGAACCCCCAGTACCCAAACCCTGCCAAGAAAAGACTAGACAGAAGTCGCACATTTGGATCGTAGCAATCAGGAAGTTattgtgtgtgttatttattgtGTGTGCATTGTTTGGGAAGTCA

Function

GO:

id name namespace
GO:0048747 muscle fiber development biological_process
GO:0035269 protein O-linked mannosylation biological_process
GO:0030198 extracellular matrix organization biological_process
GO:0001570 vasculogenesis biological_process
GO:0014706 striated muscle tissue development biological_process
GO:0060049 regulation of protein glycosylation biological_process
GO:0005794 Golgi apparatus cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0003674 molecular_function molecular_function

KEGG:

id description
ko00515 Mannose type O-glycan biosynthesis
ko01003 Glycosyltransferases
ko04131 Membrane trafficking

ZFIN:

id description
ZDB-GENE-070412-4 Acts upstream of or within several processes, including muscle cell development; regulation of protein glycosylation; and vasculogenesis. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in Golgi apparatus. Is expressed in several structures, including cloacal chamber; immature eye; nervous system; neural keel; and otic vesicle. Used to study muscular dystrophy. Human ortholog(s) of this gene implicated in dilated cardiomyopathy and muscular dystrophy (multiple). Orthologous to human FKRP (fukutin related protein).

Ensembl:

ensembl_id ENSDART00000180160

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00018815 lncRNA downstream 256745 11414691 ~ 11423104 (-) True XLOC_009045
TCONS_00017823 lncRNA downstream 580129 11097869 ~ 11099720 (-) True XLOC_009042
TCONS_00018814 lncRNA downstream 693743 10984265 ~ 10986106 (-) True XLOC_009041
TCONS_00017822 lncRNA downstream 693945 10973717 ~ 10985904 (-) False XLOC_009041
TCONS_00019124 lncRNA upstream 136831 11818484 ~ 11825881 (-) True XLOC_009047
TCONS_00019125 lncRNA upstream 188531 11870184 ~ 11875956 (-) True XLOC_009048
TCONS_00019126 lncRNA upstream 307410 11989063 ~ 11992708 (-) False XLOC_009051
TCONS_00017833 lncRNA upstream 307410 11989063 ~ 11992708 (-) False XLOC_009051
TCONS_00017831 lncRNA upstream 307410 11989063 ~ 11992903 (-) False XLOC_009051
TCONS_00017825 mRNA downstream 338214 11308462 ~ 11341635 (-) True XLOC_009044
TCONS_00017824 mRNA downstream 376158 11218246 ~ 11303691 (-) True XLOC_009043
TCONS_00017812 mRNA downstream 1224280 10000553 ~ 10455569 (-) False XLOC_009038
TCONS_00017828 mRNA upstream 271303 11952956 ~ 11956981 (-) False XLOC_009049
TCONS_00017829 mRNA upstream 272698 11954351 ~ 11955485 (-) True XLOC_009049
TCONS_00017834 mRNA upstream 323124 12004777 ~ 12011239 (-) False XLOC_009052
TCONS_00017835 mRNA upstream 323491 12005144 ~ 12011390 (-) False XLOC_009052
TCONS_00017836 mRNA upstream 327758 12009411 ~ 12011202 (-) True XLOC_009052
TCONS_00017819 other downstream 1493680 10186054 ~ 10186169 (-) True XLOC_009039
TCONS_00017810 other downstream 2059896 9601637 ~ 9619953 (-) False XLOC_009037
TCONS_00017798 other downstream 2692090 8987643 ~ 8987759 (-) True XLOC_009028
TCONS_00017797 other downstream 2823470 8839502 ~ 8856379 (-) True XLOC_009027
TCONS_00017778 other downstream 4670911 7008822 ~ 7008938 (-) True XLOC_009015
TCONS_00017830 other upstream 294490 11976143 ~ 11976260 (-) True XLOC_009050
TCONS_00017854 other upstream 2142819 13824472 ~ 13824604 (-) True XLOC_009061
TCONS_00017858 other upstream 2394886 14076539 ~ 14083113 (-) False XLOC_009064
TCONS_00017866 other upstream 2503735 14185388 ~ 14193896 (-) False XLOC_009066
TCONS_00017874 other upstream 2633701 14315354 ~ 14315470 (-) True XLOC_009071

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000308_01132580_01134190.mRNA True 2390 mRNA 0.48 1 CI01000308 1132025 ~ 1134414 (+)
rainbow trout (Oncorhynchus mykiss) LOC110503493 True 2263 mRNA 0.58 2 NC_048588.1 4174020 ~ 4176885 (-)