RNA id: TCONS_00016826


Basic Information

Item Value
RNA id TCONS_00016826
length 1173
RNA type mRNA
GC content 0.47
exon number 7
gene id XLOC_008406
representative False

Chromosome Information

Item Value
chromosome id NC_007126.7
NCBI id CM002899.2
chromosome length 48040578
location 17100412 ~ 17125217 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ATGAAAGACATGAACATTCCGAACGGCAAAGCGGCTAATGGAGACCTGGAGCTAGACTTAATAAATGAGTATCTATTGGAGAAGACAAACAAGGAGTTGACAATAACGCTGCCTGgtcctcctcctccacctgtgGATCAGGACATCCAGGCAGTTAATCCACCGCCCAGGAACAGGCGAACCACCAACAATCCAGTGCTGGTATCTAGAGGAACAGCTCCACAGAATTCACTCAGCTTTGACCAGGTCCCCACTGCGCACGCTGATGGTATGGCAGCGATGCAATCCATTCGAGGTGCTAAAGGGTCATCTCAGCGACGGGGACTGGCATCTGTAGCAACCCAGCGTCGTATTCCTCAGCAGACAGGTACAGAACATCTGGAGATGTTTCTGGAAAAGCCAGACCTGGTGGTGGTGGAGCAGCCCAAGGAGCGCGGCATGCGTTTCCGCTATGAGTGTGAGGGGCGTTCAGCAGGCAGCATCCTTGGAGCCTCCAGCACAGACTCTAACAAGACCTTGCCTGCCATTGAAatccaaGGGCCTATTGACAATATCAAGAAAGTCATGGTCACGGTGTCTCTTGTGACAAAGGACATCCCATACCGTCCACACCCCCACTGCTTGGTCGGGAAAGACTGTACAGATGGCATTTGTGTCATACACATTAATCCTCACAGTAATCGTCGTCACAGTTTTGCAAATCTTGGCATCCAGTGTGTGCGGAGGAAAGAACTAGATGCCTCACTTCAGAAGAGGAGGAATAAAAATATCGACCCTTTTAACACGGGGCACAGTAAGAGCATAGAAGACATGGACATGAACGTGGTCAGACTGTGTTTTCAGTGTGAGCTGGAACAAAAGAACGGAGATAGGATCACTCTCAATCCTGTGGTTTCCAACCCCATTTACGACAAGAGTAAGAGCAAGATCTATACATTGATCCAAAAAGTCCAGAATGCAATAATCTCTGAAGTTTCTCAGCtgataacatttgtttttgtcttattagaGGCAACCACTACTGCAGAGCTGAAAATCAATCGGCTTAATGTGATTAGAGGACCCTGCACGGGAAAGACAGAGATTTACATGCTCTGTGACAAAGTGCAAAAAGGTAACCTGACTTTAGGCCACAGTTATGTCCTGAATTCCTATCATTTGCTGTGTTTTTAA

Function

GO:

id name namespace
GO:0045087 innate immune response biological_process
GO:0038061 NIK/NF-kappaB signaling biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0006954 inflammatory response biological_process
GO:0007249 I-kappaB kinase/NF-kappaB signaling biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0033554 cellular response to stress biological_process
GO:0034097 response to cytokine biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0005829 cytosol cellular_component
GO:0005634 nucleus cellular_component
GO:0005654 nucleoplasm cellular_component
GO:0005737 cytoplasm cellular_component
GO:0003677 DNA binding molecular_function
GO:0003682 chromatin binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG:

id description
ko04010 MAPK signaling pathway
ko04064 NF-kappa B signaling pathway
ko04625 C-type lectin receptor signaling pathway
ko04380 Osteoclast differentiation
ko05166 Human T-cell leukemia virus 1 infection
ko05169 Epstein-Barr virus infection
ko03000 Transcription factors
ko02048 Prokaryotic defense system

ZFIN:

id description
ZDB-GENE-030131-9531 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including innate immune response; intracellular signal transduction; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be located in cytoplasm and nucleus. Human ortholog(s) of this gene implicated in breast cancer and immunodeficiency 53. Orthologous to human RELB (RELB proto-oncogene, NF-kB subunit).

Ensembl:

ensembl_id ENSDART00000183565

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00016818 lncRNA upstream 179710 16914731 ~ 16920987 (+) True XLOC_008403
TCONS_00016805 lncRNA upstream 1055193 16035869 ~ 16045504 (+) True XLOC_008394
TCONS_00018914 lncRNA upstream 1081908 15987054 ~ 16018789 (+) False XLOC_008393
TCONS_00018915 lncRNA upstream 1093396 15987069 ~ 16007301 (+) True XLOC_008393
TCONS_00018913 lncRNA upstream 1318145 15778988 ~ 15782552 (+) False XLOC_008390
TCONS_00016834 lncRNA downstream 252284 17370296 ~ 17372928 (+) True XLOC_008410
TCONS_00016836 lncRNA downstream 258355 17376367 ~ 17378063 (+) True XLOC_008412
TCONS_00016839 lncRNA downstream 302101 17420113 ~ 17423619 (+) True XLOC_008413
TCONS_00016849 lncRNA downstream 634903 17752915 ~ 17756122 (+) False XLOC_008417
TCONS_00018916 lncRNA downstream 638457 17756469 ~ 17757994 (+) True XLOC_008417
TCONS_00016822 mRNA upstream 5042 17074185 ~ 17095655 (+) True XLOC_008405
TCONS_00016819 mRNA upstream 51875 17030473 ~ 17048822 (+) False XLOC_008404
TCONS_00016821 mRNA upstream 52123 17031111 ~ 17048574 (+) True XLOC_008404
TCONS_00016820 mRNA upstream 57048 17030941 ~ 17043649 (+) False XLOC_008404
TCONS_00016817 mRNA upstream 186256 16908085 ~ 16914441 (+) True XLOC_008402
TCONS_00016827 mRNA downstream 133179 17251191 ~ 17255307 (+) True XLOC_008407
TCONS_00016828 mRNA downstream 140234 17258246 ~ 17285188 (+) True XLOC_008408
TCONS_00016829 mRNA downstream 167977 17285989 ~ 17294009 (+) False XLOC_008409
TCONS_00016830 mRNA downstream 167992 17286004 ~ 17340198 (+) False XLOC_008409
TCONS_00016831 mRNA downstream 203206 17321218 ~ 17339485 (+) True XLOC_008409
TCONS_00016813 other upstream 270821 16829762 ~ 16829876 (+) True XLOC_008400
TCONS_00016809 other upstream 581614 16518967 ~ 16519083 (+) True XLOC_008398
TCONS_00016791 other upstream 1699057 15394242 ~ 15401640 (+) True XLOC_008381
TCONS_00016758 other upstream 3142847 13957722 ~ 13957850 (+) True XLOC_008361
TCONS_00016757 other upstream 3575709 13524874 ~ 13524988 (+) True XLOC_008360
TCONS_00016835 other downstream 255777 17373789 ~ 17373915 (+) True XLOC_008411
TCONS_00016838 other downstream 288958 17406970 ~ 17416607 (+) False XLOC_008413
TCONS_00016851 other downstream 637766 17755778 ~ 17756767 (+) False XLOC_008417
TCONS_00016857 other downstream 968690 18086702 ~ 18086816 (+) True XLOC_008420
TCONS_00016870 other downstream 2206715 19324727 ~ 19329943 (+) False XLOC_008430