RNA id: TCONS_00043408


Basic Information

Item Value
RNA id TCONS_00043408
length 736
lncRNA type retained_intron
GC content 0.52
exon number 4
gene id XLOC_021920
representative False

Chromosome Information

Item Value
chromosome id NC_007134.7
NCBI id CM002907.2
chromosome length 46223584
location 39346774 ~ 39450700 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CAGAAGCGGTCAACATTATTGACCATGGAAAGCTGAGCCTCGTTCATTCATAGACAGAAAACAGTCAACCAAAGGTCAGCCAGAAAAACAAAGGGATTTTATTCACGCCACATTTCGTGTGGTTTTCGACGAGGCCTCGGCCATGGGTGGAGTCAAGAGTAAACCCAAAGAGCTGGGCCAGCGCTCGCGGAGTCTGGACGACGGCACCGGAGGACACCACCACCACACCCCCAACCCCACCTCCTTCACCCCTAACCGCAGTCCACCGGTGGAGGGGTCCCGGCGCGGCACACAGCCCAACATCATAAACGCGGAGCAGGCGCTCTTTGGGGGAGTGAACTCCACCACCAACAGCATCACATCTCCTAATCGAATCGGCATATTAGGCGGCGTGACCACATTTGTGGCTCTGTATGACTACGAGTCACGAACCGCCTCCGATTTGTCATTCAGGAAAGGAGAACGACTCCAGATTGTCAATAACACGGAGGGTGACTGGTGGCTAGCGCGATCACTGACGACAGGAGAGAGCGGATACATTCCCAGCAATTACGTGGCACCGTCTGACTCCATCCAGGCTGAAGAGTAaatcctcctcctccttttttttctctcctttttttgCTTTGCTCTTCTCCTCCCTGAGGCTCCATTGGTTTGCTTTTGATTTCCCTTTGTTGTGATGTCAGAACTCTCTAATCCAATTGGATCTCTCCCTGACATGATTCTGATTCCT

Function

GO:

id name namespace
GO:0045087 innate immune response biological_process
GO:0036035 osteoclast development biological_process
GO:0045453 bone resorption biological_process
GO:2001237 negative regulation of extrinsic apoptotic signaling pathway biological_process
GO:2001243 negative regulation of intrinsic apoptotic signaling pathway biological_process
GO:0042127 regulation of cell population proliferation biological_process
GO:0030154 cell differentiation biological_process
GO:0038083 peptidyl-tyrosine autophosphorylation biological_process
GO:0006468 protein phosphorylation biological_process
GO:0043114 regulation of vascular permeability biological_process
GO:0007049 cell cycle biological_process
GO:0001878 response to yeast biological_process
GO:0048920 posterior lateral line neuromast primordium migration biological_process
GO:0016310 phosphorylation biological_process
GO:0007155 cell adhesion biological_process
GO:0007169 transmembrane receptor protein tyrosine kinase signaling pathway biological_process
GO:0050847 progesterone receptor signaling pathway biological_process
GO:0007173 epidermal growth factor receptor signaling pathway biological_process
GO:0005743 mitochondrial inner membrane cellular_component
GO:0031234 extrinsic component of cytoplasmic side of plasma membrane cellular_component
GO:0048471 perinuclear region of cytoplasm cellular_component
GO:0005856 cytoskeleton cellular_component
GO:0005886 plasma membrane cellular_component
GO:0005925 focal adhesion cellular_component
GO:0005634 nucleus cellular_component
GO:0030054 cell junction cellular_component
GO:0016020 membrane cellular_component
GO:0005737 cytoplasm cellular_component
GO:0005739 mitochondrion cellular_component
GO:0005102 signaling receptor binding molecular_function
GO:0016740 transferase activity molecular_function
GO:0005524 ATP binding molecular_function
GO:0070851 growth factor receptor binding molecular_function
GO:0000166 nucleotide binding molecular_function
GO:0004672 protein kinase activity molecular_function
GO:0016301 kinase activity molecular_function
GO:0004713 protein tyrosine kinase activity molecular_function
GO:0004715 non-membrane spanning protein tyrosine kinase activity molecular_function

KEGG:

id description
ko04013 MAPK signaling pathway - fly
ko04012 ErbB signaling pathway
ko04015 Rap1 signaling pathway
ko04370 VEGF signaling pathway
ko04144 Endocytosis
ko04137 Mitophagy - animal
ko04510 Focal adhesion
ko04520 Adherens junction
ko04530 Tight junction
ko04540 Gap junction
ko04810 Regulation of actin cytoskeleton
ko04611 Platelet activation
ko04613 Neutrophil extracellular trap formation
ko04625 C-type lectin receptor signaling pathway
ko04062 Chemokine signaling pathway
ko04912 GnRH signaling pathway
ko04915 Estrogen signaling pathway
ko04917 Prolactin signaling pathway
ko04921 Oxytocin signaling pathway
ko04926 Relaxin signaling pathway
ko04919 Thyroid hormone signaling pathway
ko04727 GABAergic synapse
ko04750 Inflammatory mediator regulation of TRP channels
ko04360 Axon guidance
ko05205 Proteoglycans in cancer
ko05207 Chemical carcinogenesis - receptor activation
ko05208 Chemical carcinogenesis - reactive oxygen species
ko05203 Viral carcinogenesis
ko05219 Bladder cancer
ko05161 Hepatitis B
ko05168 Herpes simplex virus 1 infection
ko05163 Human cytomegalovirus infection
ko05167 Kaposi sarcoma-associated herpesvirus infection
ko05120 Epithelial cell signaling in Helicobacter pylori infection
ko05130 Pathogenic Escherichia coli infection
ko05131 Shigellosis
ko05135 Yersinia infection
ko05152 Tuberculosis
ko05100 Bacterial invasion of epithelial cells
ko05417 Lipid and atherosclerosis
ko05418 Fluid shear stress and atherosclerosis
ko01521 EGFR tyrosine kinase inhibitor resistance
ko01522 Endocrine resistance
ko01001 Protein kinases
ko04131 Membrane trafficking
ko03200 Viral proteins

ZFIN:

id description
ZDB-GENE-030131-3809 Predicted to enable growth factor receptor binding activity and non-membrane spanning protein tyrosine kinase activity. Acts upstream of or within posterior lateral line neuromast primordium migration; regulation of vascular permeability; and response to yeast. Predicted to be located in several cellular components, including focal adhesion; mitochondrial inner membrane; and perinuclear region of cytoplasm. Predicted to be extrinsic component of cytoplasmic side of plasma membrane. Is expressed in several structures, including adaxial cell; central nervous system; musculature system; periderm; and retina. Human ortholog(s) of this gene implicated in colorectal cancer (multiple); ductal carcinoma in situ; prostate cancer; thrombocytopenia; and type 2 diabetes mellitus. Orthologous to human SRC (SRC proto-oncogene, non-receptor tyrosine kinase).

Ensembl:

ensembl_id ENSDART00000149819

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00043402 lncRNA upstream 162876 39183246 ~ 39184309 (+) True XLOC_021918
TCONS_00044897 lncRNA upstream 791890 38537568 ~ 38555295 (+) True XLOC_021914
TCONS_00044693 lncRNA upstream 1050396 38266610 ~ 38296789 (+) True XLOC_021912
TCONS_00043390 lncRNA upstream 1051820 38266163 ~ 38295365 (+) False XLOC_021912
TCONS_00043411 lncRNA downstream 36410 39462206 ~ 39490351 (+) False XLOC_021921
TCONS_00043420 lncRNA downstream 288853 39714649 ~ 39718834 (+) True XLOC_021925
TCONS_00044694 lncRNA downstream 326692 39752488 ~ 39752964 (+) True XLOC_021926
TCONS_00044898 lncRNA downstream 1098598 40524394 ~ 40526983 (+) True XLOC_021937
TCONS_00044899 lncRNA downstream 1388947 40814743 ~ 40815221 (+) True XLOC_021940
TCONS_00043405 mRNA upstream 13872 39331216 ~ 39333313 (+) True XLOC_021919
TCONS_00043404 mRNA upstream 13873 39281229 ~ 39333312 (+) False XLOC_021919
TCONS_00043403 mRNA upstream 14596 39281229 ~ 39332589 (+) False XLOC_021919
TCONS_00043401 mRNA upstream 182319 39089574 ~ 39164866 (+) True XLOC_021917
TCONS_00043397 mRNA upstream 283588 38953844 ~ 39063597 (+) False XLOC_021916
TCONS_00043410 mRNA downstream 36193 39461989 ~ 39528154 (+) False XLOC_021921
TCONS_00043412 mRNA downstream 36412 39462208 ~ 39528324 (+) False XLOC_021921
TCONS_00043413 mRNA downstream 55741 39481537 ~ 39528988 (+) True XLOC_021921
TCONS_00043414 mRNA downstream 132712 39558508 ~ 39597901 (+) True XLOC_021922
TCONS_00043415 mRNA downstream 180312 39606108 ~ 39607679 (+) True XLOC_021923
TCONS_00043391 other upstream 1011301 38335760 ~ 38335884 (+) True XLOC_021913
TCONS_00043382 other upstream 1252625 38092005 ~ 38094560 (+) False XLOC_021909
TCONS_00043383 other upstream 1253021 38092010 ~ 38094164 (+) False XLOC_021909
TCONS_00043378 other upstream 1492563 37851830 ~ 37854622 (+) True XLOC_021906
TCONS_00043376 other upstream 1579029 37750334 ~ 37768156 (+) True XLOC_021904
TCONS_00043431 other downstream 880448 40306244 ~ 40306371 (+) True XLOC_021932
TCONS_00043437 other downstream 1040706 40466502 ~ 40472088 (+) True XLOC_021935
TCONS_00043438 other downstream 1051424 40477220 ~ 40480582 (+) True XLOC_021936
TCONS_00043441 other downstream 1326908 40752704 ~ 40752818 (+) True XLOC_021939
TCONS_00043458 other downstream 2765443 42191239 ~ 42191353 (+) True XLOC_021959

Expression Profile

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