RNA id: TCONS_00029640


Basic Information

Item Value
RNA id TCONS_00029640
length 1375
RNA type mRNA
GC content 0.47
exon number 5
gene id XLOC_015052
representative True

Chromosome Information

Item Value
chromosome id NC_007130.7
NCBI id CM002903.2
chromosome length 48449771
location 47191005 ~ 47276297 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

AGTAAGACTCCAGCGGCGGCTCTTCAGCGgagctccacacacactctcgcCCACAGACACGCGTTAAATCCGCCTTTTCCACCGGAGACTCGACGGAAAACACAGCGAGCGCGACCTATTTTCCCTCCGAGCAGCGCGGAGGAATAACGCGGCCGGAGAGAGCAACACGTATCCGGTGGGATTTGAGTCCTGAGAGGCGAGAGTTTGGCCAGAAGTGGAAACAGACGCGATTTTCCGCTTTCACGAGCGAAGACTGAGGAATTATGAGGAACCTTTGGATGATTTTAACCCTCGGCTTGACAGCCTTTCTCTCCGGGGAGCGGATATCAGTGTCTGCGGCCAAATCTCCCTCCACGACAGACGACCTGTACCTGGAGGAGGCTGGATCTGGAGGATAccctgaagatgatgatgatttcAGCTCCGGATCGGGATCAGgagcCGGAGAGGTTATTGAAGATCCCGTCACAGTAAACACACTGTTCTTCGTGCCTAAAGCAGAGCCCACGCAGGACTCCACCAAAGACTTCACACCGAAAGTGGAGACAGTGACGTCACAAGACGCCCCCAAAGACTCGAAGAAACGCAGGATAGAGGTTGCAGTTCCCGTCACAGAAGACTCTCGCAGAAACCCTGTCACCAGCACCACCAGCATCCCTCGACCTCCCATGGATCCCCAAGACGTCCAGTCAGAAAATCTTTTCCAGAGGACAGAAGTTCTGGCAGCTGTGATTGCAGGAGGAGTGATCGGCTTCCTCTTCGCCATCTTCCTCATCCTCCTGCTGGTTTACCGCATGAGAAAGAAGGACGAGGGCAGCTACGATCTGGGAGAGAGGAAACCGTCCGGAGCGGCCTATCAGAAAGCTCCCACCAAGGAGTTTTACGCATAAAATGACTTCAATATCAGTGACTACGACAAACTCCTTCTGCATTATTAAAAGAAAtgattgaggaaaaaataaataacattaaggAAAGCTTTTGGCATAGAGTATTGTAATTAAGACCttttctttcctctttttttatgACGAAAACAAACAAGAGCGCAAGCAAAATCTCTCTGTATTTAAACGTGTATCGAAACGGCTGAGAAAGAAAGGAGCAGATGTGTAAAGCTGAGGATTTCTGCATCCGTCTTCTGTCAAAGCAGCTGTTTTTAGTCGCTGACTACTTTTTAACTGTAGCAGTATGTATTTGTAAAGACGACATTTTAAAGTGGAATAATTGCGTATAATTGTTCTGTATCAGTCCTGATTTCATTTCTCATCATCCTGATTTTGATTTCGGCTCATTTATTTAGGTTCCCAGCATGTCTGATGGTTGCTCATCATCAAAGTGTTTCATTAATTTATCATTATCTCAgatgttgaac

Function

GO:

id name namespace
GO:0002040 sprouting angiogenesis biological_process
GO:0016477 cell migration biological_process
GO:0048565 digestive tract development biological_process
GO:0060973 cell migration involved in heart development biological_process
GO:0097435 supramolecular fiber organization biological_process
GO:0070121 Kupffer's vesicle development biological_process
GO:0055113 epiboly involved in gastrulation with mouth forming second biological_process
GO:0009986 cell surface cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component

KEGG:

id description
ko04514 Cell adhesion molecules
ko04361 Axon regeneration
ko05205 Proteoglycans in cancer
ko05144 Malaria
ko05418 Fluid shear stress and atherosclerosis
ko04090 CD molecules
ko00535 Proteoglycans

ZFIN:

id description
ZDB-GENE-021206-3 Acts upstream of or within several processes, including Kupffer's vesicle development; circulatory system development; and epiboly involved in gastrulation with mouth forming second. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in cell surface. Is expressed in several structures, including cardiovascular system; digestive system; endoderm; fin; and nervous system. Human ortholog(s) of this gene implicated in cleft lip and cleft palate. Orthologous to human SDC2 (syndecan 2).

Ensembl:

ensembl_id ENSDART00000141437

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00030351 lncRNA downstream 17597 47145193 ~ 47173408 (-) True XLOC_015051
TCONS_00030350 lncRNA downstream 17634 46999261 ~ 47173371 (-) False XLOC_015051
TCONS_00029639 lncRNA downstream 17907 47123688 ~ 47173098 (-) False XLOC_015051
TCONS_00030348 lncRNA downstream 426644 46724859 ~ 46764361 (-) False XLOC_015048
TCONS_00030349 lncRNA downstream 427037 46737118 ~ 46763968 (-) True XLOC_015048
TCONS_00029653 lncRNA upstream 273271 47549568 ~ 47550348 (-) False XLOC_015059
TCONS_00030352 lncRNA upstream 484600 47760897 ~ 47761491 (-) True XLOC_015063
TCONS_00029800 lncRNA upstream 497620 47773917 ~ 47778637 (-) True XLOC_015064
TCONS_00030353 lncRNA upstream 655601 47931898 ~ 47932934 (-) True XLOC_015066
TCONS_00030354 lncRNA upstream 741409 48017706 ~ 48024071 (-) False XLOC_015069
TCONS_00029638 mRNA downstream 233037 46812272 ~ 46957968 (-) True XLOC_015050
TCONS_00029637 mRNA downstream 413042 46772018 ~ 46777963 (-) True XLOC_015049
TCONS_00029636 mRNA downstream 415443 46768266 ~ 46775562 (-) False XLOC_015049
TCONS_00029635 mRNA downstream 453183 46724211 ~ 46737822 (-) False XLOC_015048
TCONS_00029634 mRNA downstream 624575 46421349 ~ 46566430 (-) True XLOC_015046
TCONS_00029641 mRNA upstream 9476 47285773 ~ 47323267 (-) True XLOC_015053
TCONS_00029644 mRNA upstream 153425 47429722 ~ 47455944 (-) False XLOC_015056
TCONS_00029645 mRNA upstream 153425 47429722 ~ 47456787 (-) False XLOC_015056
TCONS_00029646 mRNA upstream 154674 47430971 ~ 47452874 (-) True XLOC_015056
TCONS_00029647 mRNA upstream 184451 47460748 ~ 47474725 (-) True XLOC_015057
TCONS_00029625 other downstream 1168126 46019877 ~ 46022879 (-) False XLOC_015042
TCONS_00029620 other downstream 1230822 45955079 ~ 45960183 (-) True XLOC_015039
TCONS_00029605 other downstream 3128456 44049647 ~ 44062549 (-) False XLOC_015032
TCONS_00029608 other downstream 3128473 44058992 ~ 44062532 (-) False XLOC_015032
TCONS_00029587 other downstream 4160117 43029382 ~ 43030888 (-) True XLOC_015020
TCONS_00029642 other upstream 123892 47400189 ~ 47400307 (-) True XLOC_015054
TCONS_00029643 other upstream 139293 47415590 ~ 47416405 (-) True XLOC_015055
TCONS_00029659 other upstream 291416 47567713 ~ 47567848 (-) True XLOC_015061

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01031299_00001654_00001817.mRNA True 264 mRNA 0.48 1 CI01031299 1554 ~ 1817 (-)