RNA id: TCONS_00055482


Basic Information

Item Value
RNA id TCONS_00055482
length 363
lncRNA type retained_intron
GC content 0.38
exon number 2
gene id XLOC_028603
representative True

Chromosome Information

Item Value
chromosome id NC_007115.7
NCBI id CM002888.2
chromosome length 78093715
location 12782134 ~ 12795489 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GCAGAGCCCAACATGTAAATCCAAACCGGGCAGCGAGGCGGACGATGGAGCgATGGATTCGTGTGTCTTTGGACATTTTACGTCATCTACTGAGTCCAAATtaaggcctgttcacaccaagAACTTTAGCTATGACAATATTGATTAAGCCAGGGCTTTAGTTTTGCCAATCGTTTTCACTTTAAAAGGACTATAACAAAATATCGTTGTTGCAATCACTGTTACGCTGATTTCTTTTCAATCTGattcataatattaatatgttgaaTAAACAGAATGTTAATATAGTTCCTGTTCTTGGTGTGGACGGGCTGCTGTTGCTTTATGAGCTTTTTATATAGCTAAATTACATTGTAAATTCCA

Function

GO:

id name namespace
GO:0019221 cytokine-mediated signaling pathway biological_process
GO:0070498 interleukin-1-mediated signaling pathway biological_process
GO:0035556 intracellular signal transduction biological_process
GO:0045824 negative regulation of innate immune response biological_process
GO:0043407 negative regulation of MAP kinase activity biological_process
GO:0032695 negative regulation of interleukin-12 production biological_process
GO:0006468 protein phosphorylation biological_process
GO:0032720 negative regulation of tumor necrosis factor production biological_process
GO:0035162 embryonic hemopoiesis biological_process
GO:0034122 negative regulation of toll-like receptor signaling pathway biological_process
GO:0051092 positive regulation of NF-kappaB transcription factor activity biological_process
GO:0002755 MyD88-dependent toll-like receptor signaling pathway biological_process
GO:0007165 signal transduction biological_process
GO:0005886 plasma membrane cellular_component
GO:0005634 nucleus cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0005737 cytoplasm cellular_component
GO:0005524 ATP binding molecular_function
GO:0004672 protein kinase activity molecular_function
GO:0004674 protein serine/threonine kinase activity molecular_function

KEGG:

id description
ko04722 Neurotrophin signaling pathway
ko01001 Protein kinases

ZFIN:

id description
ZDB-GENE-980526-88 Predicted to enable MHC class II protein complex binding activity. Predicted to be involved in antigen processing and presentation of exogenous peptide antigen via MHC class II; peptide antigen assembly with MHC class II protein complex; and positive regulation of T cell activation. Predicted to act upstream of or within several processes, including MyD88-dependent toll-like receptor signaling pathway; negative regulation of innate immune response; and negative regulation of toll-like receptor signaling pathway. Predicted to be located in extracellular region and membrane. Predicted to be integral component of membrane. Predicted to be part of MHC class II protein complex. Is expressed in several structures, including eye; heart; integument; liver; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in arthritis; familial visceral amyloidosis; immunodeficiency 43; and inflammatory bowel disease. Orthologous to human B2M (beta-2-microglobulin).

Ensembl:

ensembl_id ENSDART00000150325

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00058125 lncRNA downstream 49382 12741401 ~ 12744353 (-) True XLOC_028600
TCONS_00057332 lncRNA downstream 51135 12741362 ~ 12742600 (-) False XLOC_028600
TCONS_00055467 lncRNA downstream 75983 12715922 ~ 12717752 (-) False XLOC_028598
TCONS_00055459 lncRNA downstream 470576 12321818 ~ 12323159 (-) True XLOC_028594
TCONS_00058124 lncRNA downstream 496285 12288765 ~ 12297450 (-) True XLOC_028593
TCONS_00055485 lncRNA upstream 79800 12873982 ~ 12883327 (-) False XLOC_028605
TCONS_00055484 lncRNA upstream 79800 12873982 ~ 12883327 (-) True XLOC_028605
TCONS_00055494 lncRNA upstream 177740 12971922 ~ 12975475 (-) False XLOC_028608
TCONS_00058126 lncRNA upstream 194796 12988978 ~ 12989698 (-) True XLOC_028609
TCONS_00057333 lncRNA upstream 229325 13023507 ~ 13024168 (-) True XLOC_028611
TCONS_00055478 mRNA downstream 2745 12786166 ~ 12790990 (-) False XLOC_028603
TCONS_00055474 mRNA downstream 2764 12782134 ~ 12790971 (-) False XLOC_028603
TCONS_00055475 mRNA downstream 2849 12785964 ~ 12790886 (-) False XLOC_028603
TCONS_00055472 mRNA downstream 12553 12769951 ~ 12781182 (-) False XLOC_028602
TCONS_00055471 mRNA downstream 27317 12755136 ~ 12766418 (-) True XLOC_028601
TCONS_00055483 mRNA upstream 25090 12819272 ~ 12862087 (-) True XLOC_028604
TCONS_00055486 mRNA upstream 96486 12890668 ~ 12907826 (-) False XLOC_028606
TCONS_00055487 mRNA upstream 96486 12890668 ~ 12914307 (-) False XLOC_028606
TCONS_00055489 mRNA upstream 98425 12892607 ~ 12914163 (-) False XLOC_028606
TCONS_00055488 mRNA upstream 98425 12892607 ~ 12914163 (-) False XLOC_028606
TCONS_00055473 other downstream 12600 12777709 ~ 12781135 (-) True XLOC_028602
TCONS_00055465 other downstream 197931 12595680 ~ 12595804 (-) True XLOC_028597
TCONS_00055464 other downstream 360719 12413419 ~ 12433016 (-) True XLOC_028596
TCONS_00055457 other downstream 507669 12275114 ~ 12286066 (-) True XLOC_028592
TCONS_00055433 other downstream 1185452 11608196 ~ 11608283 (-) True XLOC_028575
TCONS_00055491 other upstream 112799 12906981 ~ 12914170 (-) True XLOC_028606
TCONS_00055495 other upstream 181034 12975216 ~ 12978899 (-) True XLOC_028608
TCONS_00055502 other upstream 413929 13208111 ~ 13255813 (-) True XLOC_028612
TCONS_00055510 other upstream 769485 13563667 ~ 13567275 (-) True XLOC_028621
TCONS_00055533 other upstream 1372860 14167042 ~ 14169631 (-) False XLOC_028633

Expression Profile

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