RNA id: TCONS_00069961


Basic Information

Item Value
RNA id TCONS_00069961
length 583
lncRNA type retained_intron
GC content 0.37
exon number 2
gene id XLOC_035676
representative True

Chromosome Information

Item Value
chromosome id NC_007119.7
NCBI id CM002892.2
chromosome length 54304671
location 24281512 ~ 24295947 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ATGCTTTTGCCAGAGCTTTTAAAGTTTGGAGTGACGTCACCCCTCTGACGTTCACACGCCTCTTTGACGGCATTGCTGACATCATGATCTCTTTCGGGAAAGCAGATCACGGTGATCCCTACCCCTTTGATGGAAAAGATGGGCTGCTGGCTCACGCTTATCCTCCAGGTGAAGGCACACAGGGAGACGCTCATTTTGATGACGATGAATACTGGACCCTTGGCTCTGGACCAGGTGAGTGTCGTTTTAACTCAAGTAGCTTTGATAAATAGGTTAAGTGGTTTAAAACATAATTTAGCATCGCTCTTTATTATAACAACTGCATAGTGTGCATAGAGGAGCAATAGCTCCCTCTGCAGTTCTGAATGAGTAGTGACGGTTACAAacttttttctttcaaaattgtaattaaaacaatgattattatatatatttattttaaagtaaaatactatttaagatttcttttttaatcttccatgtttattcttattgtttgtgtttattagcaaCTTCTGAGTAAAAATATTTCTTCAccattttgtttttcaatttgaGATAGCATTTTAACATGTCCtttgca

Function

GO:

id name namespace
GO:0090594 inflammatory response to wounding biological_process
GO:0003417 growth plate cartilage development biological_process
GO:0009617 response to bacterium biological_process
GO:0030198 extracellular matrix organization biological_process
GO:0060429 epithelium development biological_process
GO:0030199 collagen fibril organization biological_process
GO:0002633 positive regulation of granuloma formation biological_process
GO:0031101 fin regeneration biological_process
GO:0006508 proteolysis biological_process
GO:0030574 collagen catabolic process biological_process
GO:0035701 hematopoietic stem cell migration biological_process
GO:0033334 fin morphogenesis biological_process
GO:0042060 wound healing biological_process
GO:0031012 extracellular matrix cellular_component
GO:0046872 metal ion binding molecular_function
GO:0004222 metalloendopeptidase activity molecular_function
GO:0016787 hydrolase activity molecular_function
GO:0008233 peptidase activity molecular_function
GO:0008237 metallopeptidase activity molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
ko04668 TNF signaling pathway
ko04657 IL-17 signaling pathway
ko04670 Leukocyte transendothelial migration
ko04915 Estrogen signaling pathway
ko04926 Relaxin signaling pathway
ko05200 Pathways in cancer
ko05202 Transcriptional misregulation in cancer
ko05206 MicroRNAs in cancer
ko05205 Proteoglycans in cancer
ko05219 Bladder cancer
ko05215 Prostate cancer
ko05161 Hepatitis B
ko05417 Lipid and atherosclerosis
ko05418 Fluid shear stress and atherosclerosis
ko05415 Diabetic cardiomyopathy
ko01522 Endocrine resistance
ko01002 Peptidases and inhibitors

ZFIN:

id description
ZDB-GENE-040426-2132 Predicted to enable metalloendopeptidase activity. Acts upstream of or within several processes, including collagen fibril organization; fin regeneration; and positive regulation of granuloma formation. Predicted to be located in extracellular matrix and extracellular region. Is expressed in several structures, including cardiovascular system; female organism; head; hematopoietic cell; and hematopoietic system. Human ortholog(s) of this gene implicated in several diseases, including Down syndrome; anodontia; artery disease (multiple); autoimmune disease (multiple); and lung disease (multiple). Orthologous to human MMP9 (matrix metallopeptidase 9).

Ensembl:

ensembl_id ENSDART00000141129

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00071930 lncRNA upstream 376222 23898723 ~ 23907373 (+) True XLOC_035671
TCONS_00069954 lncRNA upstream 435072 23836129 ~ 23848523 (+) True XLOC_035669
TCONS_00069943 lncRNA upstream 542785 23738123 ~ 23740810 (+) False XLOC_035664
TCONS_00069930 lncRNA upstream 627768 23653147 ~ 23655827 (+) True XLOC_035660
TCONS_00072198 lncRNA upstream 810729 23462818 ~ 23472866 (+) True XLOC_035657
TCONS_00069974 lncRNA downstream 34425 24326026 ~ 24329469 (+) True XLOC_035677
TCONS_00071931 lncRNA downstream 56880 24348481 ~ 24350244 (+) True XLOC_035678
TCONS_00072199 lncRNA downstream 126268 24417869 ~ 24692136 (+) True XLOC_035679
TCONS_00071932 lncRNA downstream 289269 24580870 ~ 24588948 (+) True XLOC_035680
TCONS_00072200 lncRNA downstream 330433 24622034 ~ 24623602 (+) True XLOC_035681
TCONS_00069959 mRNA upstream 132343 24110045 ~ 24151252 (+) True XLOC_035675
TCONS_00069956 mRNA upstream 206751 23916647 ~ 24076844 (+) True XLOC_035672
TCONS_00069955 mRNA upstream 404200 23861461 ~ 23879395 (+) True XLOC_035670
TCONS_00069953 mRNA upstream 422876 23827571 ~ 23860719 (+) False XLOC_035669
TCONS_00069952 mRNA upstream 423838 23826985 ~ 23859757 (+) False XLOC_035669
TCONS_00069962 mRNA downstream 5038 24296639 ~ 24325903 (+) False XLOC_035677
TCONS_00069963 mRNA downstream 7720 24299321 ~ 24325355 (+) False XLOC_035677
TCONS_00069964 mRNA downstream 7720 24299321 ~ 24329925 (+) False XLOC_035677
TCONS_00069965 mRNA downstream 7720 24299321 ~ 24347545 (+) False XLOC_035677
TCONS_00069966 mRNA downstream 7720 24299321 ~ 24359409 (+) False XLOC_035677
TCONS_00069958 other upstream 219300 24064210 ~ 24064295 (+) True XLOC_035674
TCONS_00069957 other upstream 362879 23917588 ~ 23920716 (+) True XLOC_035673
TCONS_00069946 other upstream 502201 23781005 ~ 23781394 (+) True XLOC_035666
TCONS_00069944 other upstream 540619 23738156 ~ 23742976 (+) True XLOC_035664
TCONS_00069942 other upstream 542785 23738123 ~ 23740810 (+) False XLOC_035664
TCONS_00069972 other downstream 25994 24317595 ~ 24323347 (+) False XLOC_035677
TCONS_00069973 other downstream 33748 24325349 ~ 24331270 (+) False XLOC_035677
TCONS_00069975 other downstream 414950 24706551 ~ 24711139 (+) True XLOC_035682
TCONS_00069976 other downstream 425401 24717002 ~ 24721472 (+) False XLOC_035683
TCONS_00069977 other downstream 438519 24730120 ~ 24743864 (+) False XLOC_035684