RNA id: TCONS_00073250


Basic Information

Item Value
RNA id TCONS_00073250
length 2256
RNA type mRNA
GC content 0.54
exon number 3
gene id XLOC_037216
representative True

Chromosome Information

Item Value
chromosome id NC_007120.7
NCBI id CM002893.2
chromosome length 56459846
location 30090656 ~ 30102778 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CTGTTTATGTCCAGTTTGCATTGGTCAGTCGGTCAAGGTGTGTGTTTTCGGGGTCTTTCTGAGAGTGAGCCCACCAATCCTTGAGATTATCTTCTCCTACGGCCGTTCAGAGGAAAGgCCATGGCCATGGCTGCTTTCCTGGTAGCTTTGGTGCAACTGACTTTTTTGCCATTAGCTTTTGGAGGTGGATATTATCCACACAAGTCGCATCCTCAGCAACATCAACCCTTACCACAGATGCACATGGGCATGGGAAAGGAAATGCCACACATGCCATATCCACACTACAGAAAAGATCTACCAATGCACCTTAACAAAGGCAAGGATAACAAAGGTGAGACCATTCCCAGAGGTGAGCAGGGTGTTCAAGGTCAGCCTGGAGCTCAAGGGCCTGTTGGTCCTCCTGGGCCCCAAGGACCTCCTGGGCCTCAAGGCAATGGTATCCAAGGCCCTCCTGGAAAGCCAGGACCTCCTGGTCCTCCAGGATATCCTGGAATTGGTAAGCCAGGAATGTCAGGTATGCCTGGTAAAGCAGGAGATCCTGGGCAACCTGGACAACCAGGTGAACAGGGACCCAGAGGTGAAGATGGACAACCAGGCATCGCTGGAccccctggccctccaggaccctcTGGCTTGCCAGGAATAGGAAAGCCTGGTGGACAAGGATTACCAGGACAGCCAGGGAATAAAGGAGAGCCAGGACATAAAGGTTTTCCTGGTCTTCCAGGGTTACCTGGACCTAAAGGAGACAGAGGAATTGGACTACCGGGCCCACAAGGACCCAAAGGGCCAGTTGGGCCACCTGGACTTCGAGGGCCAGCTGGATTGCCAGGGGTGGGTAAGACTGGCCTTCCTGGCATACCGGGTCCAGCTGGTGTGCCAGGCAAACCTGGAGAGCCTGGCGAGCCAGGCCCAGAGGGTCCACCTGGGGAAAAGGGCCCACAGGGTCCACAAGGGGCACCGGGTATTGGAAGTCCAGGAGAAAAAGGATTACCGGGCCAGCCAGGTACACCTGGCCACAAAGGATTACATGGACCTCCAGGGTTACCTGGAAAACCTGGGCTACCTGGATTTGGAAAACCTGGATATCCTGGCCCAAAGGGTGACAGAGGAATGGGAGGGCTTCCTGGTCCTCAAGGACCAAAAGGAGAAAAGGGTCATATGGGTCAACCAGGCATGATGGGTCCCCCTGGTCAAACTGGCCTTCCAGGCCCTTCAGGACCAATAGGAGCACCAGGTGAAGTTGGTTCACCTGGACTTAAAGGAGAGGGAGGTGCAGGAGGTGCCAAGGGAGATCCAGGACCTATTGGGCTAACAGGTCCTCCAGGAATTCCTGGCCAACCAGGACAACCAGGTGAAGATGGAGAACCTGGGCCAAGAGGACCGCAAGGACCTATTGGTCCCAAAGGAGAAGGTGGCAGCAATGGTCTACCTGGTCCCCCAGGTCAATCTGGCCTACCTGGTCTTAAAGGAGAAACTGGTCCACCTGGTCCTGAAGGACCACGGGGTCCCACAGGCATTCCAGGACTTGCAGGACCAGGAGGACTACTTGGGCCACCTGGACCTCCCGGGCCAAAAGGAGAAGTTGGTCCACCAGGTCAAGCTGGTCAACCTGGTGAAGGCAGCCCTGGAATCCAGGGTCCAGTTGGTCCTCCAGGTCCACCAGGCCCAAATGGATCACCAGGTCAGCCAGGAATCCAAGGTCCACCAGGGCCTCCTGGACCGCCAGGCCCCGCTCCTTCCCCTGATCTAATGGGTGTTCTTCCTGAAATGGGTCCTGCCCTTGATGGTGTGAAAGCTGGCTACAAGAAAGGGAAATATGCAGGTGAGGGTGATATGATGGGTGCCAACGGCCTGGAGATGCCTGCTTTCACTGCCAAACTCACCGCACCATTCCCTCCTGTTGGCACACCAATAGTGCTTGACAAACTATTGTACAATGGACGTCAGAATTACAACCCTCAGACAGGTGTGTTCACCTGTGACCTCCCAGGTGTTTACTATTTTGCATATCATGTGCACTGCAAGGGTGCAAATGTATGGGTTGGGCTCTACAGAAATGGAGAACCGGTTATGTATACATATGATGAGTACAAAAAGGGATTCCTTGATCAAGCATCTGGGAGTGCTGTGATTCCTTTACAACCAGGAGACACAGTCTATTTACAATTACCATCTGACCAGGCGGCTGGATTTTATGCAGGACAATTTGTCCACTCCTCCTTCTCCGGGTTTTTACTTTACCCAATGTAA

Function

GO:

id name namespace
GO:0030198 extracellular matrix organization biological_process
GO:0048570 notochord morphogenesis biological_process
GO:0014028 notochord formation biological_process
GO:0030903 notochord development biological_process
GO:0060322 head development biological_process
GO:0031012 extracellular matrix cellular_component
GO:0005576 extracellular region cellular_component
GO:0005581 collagen trimer cellular_component
GO:0005615 extracellular space cellular_component
GO:0005201 extracellular matrix structural constituent molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-070912-274 Predicted to be an extracellular matrix structural constituent. Acts upstream of or within head development and notochord formation. Predicted to be located in extracellular region. Predicted to be part of collagen trimer. Predicted to be active in extracellular matrix and extracellular space. Is expressed in several structures, including epidermis; hypochord; notochord; prechordal plate; and splanchnocranium. Orthologous to human COL8A1 (collagen type VIII alpha 1 chain).

Ensembl:

ensembl_id ENSDART00000102981

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00073246 lncRNA upstream 396457 29690678 ~ 29694199 (+) True XLOC_037214
TCONS_00073245 lncRNA upstream 411500 29677820 ~ 29679156 (+) True XLOC_037213
TCONS_00075143 lncRNA upstream 421038 29662709 ~ 29669618 (+) False XLOC_037212
TCONS_00075144 lncRNA upstream 421038 29662742 ~ 29669618 (+) True XLOC_037212
TCONS_00075142 lncRNA upstream 431921 29652755 ~ 29658735 (+) True XLOC_037211
TCONS_00075145 lncRNA downstream 52006 30154784 ~ 30155280 (+) True XLOC_037219
TCONS_00075146 lncRNA downstream 145717 30248495 ~ 30249424 (+) True XLOC_037222
TCONS_00075147 lncRNA downstream 161579 30264357 ~ 30265423 (+) True XLOC_037223
TCONS_00073262 lncRNA downstream 191295 30294073 ~ 30308132 (+) False XLOC_037225
TCONS_00073263 lncRNA downstream 285138 30387916 ~ 30392745 (+) False XLOC_037226
TCONS_00073249 mRNA upstream 83179 29994439 ~ 30007477 (+) True XLOC_037215
TCONS_00073248 mRNA upstream 86582 29992271 ~ 30004074 (+) False XLOC_037215
TCONS_00073247 mRNA upstream 96518 29985010 ~ 29994138 (+) False XLOC_037215
TCONS_00073243 mRNA upstream 411484 29671553 ~ 29679172 (+) False XLOC_037213
TCONS_00073242 mRNA upstream 437913 29643133 ~ 29652743 (+) False XLOC_037211
TCONS_00073251 mRNA downstream 5863 30108641 ~ 30111105 (+) True XLOC_037217
TCONS_00073252 mRNA downstream 9645 30112423 ~ 30128758 (+) False XLOC_037218
TCONS_00073253 mRNA downstream 9645 30112423 ~ 30128760 (+) True XLOC_037218
TCONS_00073254 mRNA downstream 101637 30204415 ~ 30206739 (+) False XLOC_037220
TCONS_00073255 mRNA downstream 103433 30206211 ~ 30206763 (+) True XLOC_037220
TCONS_00073244 other upstream 412404 29676902 ~ 29678252 (+) False XLOC_037213
TCONS_00073240 other upstream 435658 29642857 ~ 29654998 (+) False XLOC_037211
TCONS_00073237 other upstream 456302 29616854 ~ 29634354 (+) False XLOC_037210
TCONS_00073239 other upstream 464377 29616928 ~ 29626279 (+) True XLOC_037210
TCONS_00073228 other upstream 557011 29520843 ~ 29533645 (+) True XLOC_037207
TCONS_00073260 other downstream 191295 30294073 ~ 30304330 (+) False XLOC_037225
TCONS_00073279 other downstream 717512 30820290 ~ 31015326 (+) False XLOC_037234
TCONS_00073282 other downstream 973278 31076056 ~ 31166402 (+) False XLOC_037235
TCONS_00073288 other downstream 1392870 31495648 ~ 31495765 (+) True XLOC_037239
TCONS_00073291 other downstream 1463621 31566399 ~ 31572679 (+) True XLOC_037241

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000009_00603498_00605392.mRNA True 1852 mRNA 0.52 2 CI01000009 603228 ~ 605392 (+)