RNA id: TCONS_00007544


Basic Information

Item Value
RNA id TCONS_00007544
length 2293
RNA type mRNA
GC content 0.54
exon number 31
gene id XLOC_003935
representative True

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 11274940 ~ 11301357 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

aaacataaattttaATACTCCACCGAGAGACTGGTAGTTTGTGAGATTTAGTTGGGGGAATATTACCAGAAAACCCGAGAACCCCCAACAAATCTCCTAAAAAGGACTATATTGCCATCTTTAAGTCATCGGGGTGACCATGGCGCACGCCGGGACTCTCCGCGCGTCCCTGCTACTGATTTTACTTCAGTTAGTCCTCATCATCTCCGCACAGaggGGGCCAGTTGGTCCGAGAGGGCTGCCTGGACCTCCAGGGCTTCCTGGATTTCCTGGTGTAGATGGCATTGATGGTGAAAGAGGACCTGGCCCCGGCCCAGTTGGACCCCCAGGCCTTGATGGAGACAATGGCAGAAATGGGTTAAATGGCCTTCCAGGAAAACCTGGAGCAGATGGTTTGACTGGGCCCCGTGGTGCTCCTGGCCCTGTTGGCCCTACTGGACAGAAAGGTGAACCTGGCGAGCCGGGACTGAGAGGAGCCGCTGGTGTTGGAGAGGATGGTGAAGCTGGTGCTGATGGAGATGATGGTTTACCTGGTGAGATGGGAAAAGTTGGACCTCCAGTATGTGATGTCATTCCATTATGCAAttcaaacaataataatcaaatgaaatataataaaataaaaatggtttctGGTTCTGTTTTAAAGGGAAGCCGTGGAGTGAGAGGTCCTGTTGGTGATCAAGGACTGCCTGGACccagaGGCCCTCCTGGAGTCTGGGATGGTAAGGAGCTgTGTCCAAATTCATGCACTTCTGGCCTGAATGGATACACAGGTCTTCCAGGCATGAAGGGCCACAAAGGTGTCAAAGGTGAATCAGGAGAACCAGGAAGGCAAGGACATAAGGGTGAAGAAGGAGACCAGGGACGAACTGGAGAACAGGGAACACAAGGACTACCTGGTAAGCAGGGTCTCAGAGGAATTACAGGATTGATGGGCCCTAAAGGGGACAGGGGACCTCGTGGGAATGTTGGAGATCTGGGTCCTCAGGGTATTCAAGGTGCTCCTggtGATCAAGGCCAAAGAGGAAAATATGGTGAAACTGGACCAAAAGGGTCTCAGGGACCTGAAGGGTTGCAAGGACTTCCGGGTTTACCTGGACCAAAAGGAGACGCTGGTTTGCCAGCAGTTGATGCTCGTGATGGTATTCCAGGACTGCCTGGAGTAAAGGGTCTTCCTGGAAAAGTTGGCTCTCCTGGGGATGCTGGACTTCAGGGATTTCCAGGTCTGCCTGGCATTTCAGGAGCAAAAGGCCACATGGGTCTAAAAGGAAGTACTGGTGATCCAGGTGTAGCAGGTCCAATTGGAAATAATGGAAAGACAGGTGAACGTGGTGAGCAGGGGGAGGTGGGACCAGTTGGACCAAGAGGTGGGCCAggtgAAAGAGGAGCAAGAGGTCCTGATGGGCCTGCAGGCCTTCCAGGTGCAAGGGGATCTAAAGGGGATCCCGGGCTTCCTGGTCTTCCAGGGCCTGCTGGATTCATCGGACAAAAAGGCGACAGGggtgcGGTTGGATTTACTGGTCCTAAAGGAGAGCAAGGGCCATCTGGTGAAGAAGGAGCACCAGGAGACAAAGGAGATGTTGGTGATGAAGGAGAGCCAGGCGAGAAAGGATCGACAGGAAAACAAGGAGATCCAGGGAATAAAGGGCCAGAGGGTGCACGTGGCCAATCTGGACCCGACGGCCCAGTGGGAGTGCCGGGTCCAAGAGGCATGCAAGGTGACCCAGGGGTCCCTGGATTGCCTGGAGCCCAAGGAAAACCAGGCCGAGCACCAACAGATGAACATATCAAGCAGGTCTGCAGAAGGGTTTTGCATGGACAACTTGCTCAGCTGGCAGCCAGTCTGACAAGGCCTGAGTCGGGCATTGCTGGGTTGCCAGGTCCTCCTGGTCCTCCTGGCCCTCCGGGTTCATCTGGAGAAAATGGGTTCCCTGGGCATCCCGGAAGCAGAGGGCTGCCAGGCCTCAAAGGACCACCAGGGCTCTTGGGGAGGAAAGGCCCCAAAGGTGACCAGGGTGATAGAGGTGACAGAGGGCTCACAGCAGTGGGACCTAAAGGTATACCTGGACCACCAGGACTCCCAGGTGAGCCTGGTAAACCTGCGTATGGCAGTAATGGCCGGGACGGTCAGAGAGGGCCTGTAGGAGTTCCTGGAATGCCAGGTGTGCCGGGGCCCCCCGGCCCCCCTGGCCTTAACGGATACTGCGAGTCATCTCAGTGTGTTCTTCAAGCAGCCGCAGGCCAACAGTCATTCAAAGAGTCCAACATGAAGGGGCCAGACGCTCTATGA

Function

GO:

id name namespace
GO:0030198 extracellular matrix organization biological_process
GO:0031012 extracellular matrix cellular_component
GO:0005615 extracellular space cellular_component
GO:0005201 extracellular matrix structural constituent molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-080721-25 Predicted to be an extracellular matrix structural constituent. Predicted to be involved in extracellular matrix organization. Predicted to be active in extracellular matrix and extracellular space. Human ortholog(s) of this gene implicated in Stickler syndrome; multiple epiphyseal dysplasia 6; and osteochondrodysplasia. Orthologous to human COL9A1 (collagen type IX alpha 1 chain).

Ensembl:

ensembl_id ENSDART00000180466

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00007541 lncRNA downstream 415434 10859024 ~ 10860106 (-) True XLOC_003933
TCONS_00008768 lncRNA downstream 947013 10305130 ~ 10328527 (-) True XLOC_003927
TCONS_00008455 lncRNA downstream 1752356 9521226 ~ 9523184 (-) True XLOC_003922
TCONS_00008766 lncRNA downstream 1752923 9510569 ~ 9522617 (-) False XLOC_003922
TCONS_00007547 lncRNA upstream 17833 11319190 ~ 11325620 (-) False XLOC_003936
TCONS_00008456 lncRNA upstream 41923 11343280 ~ 11343574 (-) True XLOC_003939
TCONS_00008457 lncRNA upstream 52617 11353974 ~ 11354268 (-) True XLOC_003940
TCONS_00008458 lncRNA upstream 55536 11356893 ~ 11357187 (-) True XLOC_003941
TCONS_00008459 lncRNA upstream 103239 11404596 ~ 11404890 (-) True XLOC_003946
TCONS_00007542 mRNA downstream 8658 11263451 ~ 11266882 (-) True XLOC_003934
TCONS_00007540 mRNA downstream 424604 10832560 ~ 10850936 (-) True XLOC_003932
TCONS_00007539 mRNA downstream 447001 10812949 ~ 10828539 (-) True XLOC_003931
TCONS_00007538 mRNA downstream 477476 10685626 ~ 10798064 (-) True XLOC_003930
TCONS_00007537 mRNA downstream 505487 10685626 ~ 10770053 (-) False XLOC_003930
TCONS_00007545 mRNA upstream 17784 11319141 ~ 11331052 (-) False XLOC_003936
TCONS_00007546 mRNA upstream 17784 11319141 ~ 11331146 (-) False XLOC_003936
TCONS_00007550 mRNA upstream 31295 11332652 ~ 11336986 (-) True XLOC_003937
TCONS_00007565 mRNA upstream 153188 11454545 ~ 11458208 (-) True XLOC_003956
TCONS_00007566 mRNA upstream 167209 11468566 ~ 11471857 (-) True XLOC_003957
TCONS_00007494 other downstream 3149345 8111369 ~ 8126195 (-) True XLOC_003913
TCONS_00007477 other downstream 4159177 7116247 ~ 7116363 (-) True XLOC_003904
TCONS_00007463 other downstream 4327522 6944300 ~ 6948018 (-) False XLOC_003898
TCONS_00007456 other downstream 4493464 6780708 ~ 6782076 (-) True XLOC_003894
TCONS_00007441 other downstream 5068951 6197276 ~ 6206589 (-) False XLOC_003884
TCONS_00007548 other upstream 24165 11325522 ~ 11331050 (-) False XLOC_003936
TCONS_00007549 other upstream 29368 11330725 ~ 11331090 (-) True XLOC_003936
TCONS_00007551 other upstream 37447 11338804 ~ 11339100 (-) True XLOC_003938
TCONS_00007552 other upstream 66237 11367594 ~ 11367890 (-) True XLOC_003942
TCONS_00007553 other upstream 69098 11370455 ~ 11370653 (-) True XLOC_003943

Expression Profile

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