RNA id: TCONS_00004934


Basic Information

Item Value
RNA id TCONS_00004934
length 812
RNA type mRNA
GC content 0.54
exon number 5
gene id XLOC_002654
representative False

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 14871136 ~ 14943281 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CAAGCTCCATCATCACACTGCCACTGATTCCTGCTGCAGCCTCCATCAACACCTGAGAGCACAGGTAGACCGGGACAGGGAGTCGATTAGCGGCCCATGCAGCCTTAACGAGCCCGTGAGACACCATCAAATCACCGAAGAAGGTAACCCCTCACCCCCCTTTCCTCTCCTGTTTCCTAAACATCTATGCCCCCTGCCCCCTCATAATCAGCCCAGAGACCCAGTTAGGAACTTTGGGTCTGTTCCTCCCCATTCTCCTAGCCTCCATCTGTCTCTCTAACTCCACCTGCCCAGACTGACCGCTCATCGGACaccccaagaaaaaaaaaaacatgtcctcCATCTTGCCTTTCACTCCGCCCGTGGTGAAACGTCTGCTGGGTTGGAAGAAGTCTGCTAGTGGTTCAAGCGGAGCAGGAGGTGGTGGAGAGCAAAACGGCCAGGAGGAGAAGTGGTGCGAGAAGGCAGTCAAAAGCCTGGTAAAGAAGTTGAAGAAAACTGGCCAACTGGACGAGCTGGAGAAGGCCATCACCACACAAAACCGCAACACCAAGTGTGTCACCATTCCCAGCAATTGCTCTGAAATTTGGGGACTGAGTACACCAAATACGATAGAACAGTGGGATACCTCAGGCCTTTACAGCTACCCTGACCAAACCAGATCTCTGGACGGGCGTTTGCAAGTGTCTCACCGTAAAGGTCTGCCTCATGTCATCTACTGCCGCCTGTGGCGATGGCCCGACCTGCACAGCCATCACGAGCTGCGCGCCATCGAGACCTGCGAGTATGCTTTCAACCTCAAGAAGGATGAA

Function

GO:

id name namespace
GO:0007179 transforming growth factor beta receptor signaling pathway biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0030154 cell differentiation biological_process
GO:0035556 intracellular signal transduction biological_process
GO:0060395 SMAD protein signal transduction biological_process
GO:0009880 embryonic pattern specification biological_process
GO:0007275 multicellular organism development biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0030509 BMP signaling pathway biological_process
GO:0009653 anatomical structure morphogenesis biological_process
GO:0060282 positive regulation of oocyte development biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0021999 neural plate anterior/posterior regionalization biological_process
GO:0071144 heteromeric SMAD protein complex cellular_component
GO:0005634 nucleus cellular_component
GO:0005667 transcription regulator complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0008134 transcription factor binding molecular_function
GO:0001228 DNA-binding transcription activator activity, RNA polymerase II-specific molecular_function
GO:0005515 protein binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function
GO:0031625 ubiquitin protein ligase binding molecular_function
GO:0070411 I-SMAD binding molecular_function

KEGG:

id description
ko04350 TGF-beta signaling pathway
ko04390 Hippo signaling pathway
ko04371 Apelin signaling pathway
ko04144 Endocytosis
ko04110 Cell cycle
ko04218 Cellular senescence
ko04550 Signaling pathways regulating pluripotency of stem cells
ko04659 Th17 cell differentiation
ko04926 Relaxin signaling pathway
ko05200 Pathways in cancer
ko05205 Proteoglycans in cancer
ko05210 Colorectal cancer
ko05212 Pancreatic cancer
ko05225 Hepatocellular carcinoma
ko05226 Gastric cancer
ko05166 Human T-cell leukemia virus 1 infection
ko05142 Chagas disease
ko05321 Inflammatory bowel disease
ko05415 Diabetic cardiomyopathy
ko04933 AGE-RAGE signaling pathway in diabetic complications

ZFIN:

id description
ZDB-GENE-990603-7 Enables DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in embryonic pattern specification and intracellular signal transduction. Acts upstream of with a positive effect on nodal signaling pathway. Acts upstream of or within negative regulation of transcription by RNA polymerase II; neural plate anterior/posterior regionalization; and positive regulation of oocyte development. Located in chromatin and nucleus. Is expressed in brain; head; immature eye; and tail bud. Human ortholog(s) of this gene implicated in Lynch syndrome; cervical cancer; and ovarian cancer. Orthologous to human SMAD2 (SMAD family member 2).

Ensembl:

ensembl_id ENSDART00000143608

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00006012 lncRNA downstream 1592680 13298839 ~ 13301973 (-) True XLOC_002642
TCONS_00006011 lncRNA downstream 2996078 11895373 ~ 11898575 (-) True XLOC_002638
TCONS_00004895 lncRNA downstream 3561540 11331969 ~ 11333113 (-) False XLOC_002632
TCONS_00006010 lncRNA downstream 4107004 10784334 ~ 10787649 (-) True XLOC_002626
TCONS_00006009 lncRNA downstream 4180426 10712178 ~ 10714227 (-) True XLOC_002625
TCONS_00006013 lncRNA upstream 87725 15031006 ~ 15042748 (-) True XLOC_002656
TCONS_00006014 lncRNA upstream 89691 15032972 ~ 15034960 (-) True XLOC_002657
TCONS_00004942 lncRNA upstream 139129 15082410 ~ 15084047 (-) False XLOC_002660
TCONS_00004943 lncRNA upstream 139129 15082410 ~ 15086297 (-) False XLOC_002660
TCONS_00005751 lncRNA upstream 140313 15083594 ~ 15083896 (-) True XLOC_002660
TCONS_00004927 mRNA downstream 337675 14547941 ~ 14556978 (-) True XLOC_002652
TCONS_00004926 mRNA downstream 348995 14542726 ~ 14545658 (-) True XLOC_002651
TCONS_00004925 mRNA downstream 354210 14529807 ~ 14540443 (-) True XLOC_002650
TCONS_00004924 mRNA downstream 358254 14525184 ~ 14536399 (-) False XLOC_002650
TCONS_00004923 mRNA downstream 406181 14420964 ~ 14488472 (-) True XLOC_002649
TCONS_00004938 mRNA upstream 103556 15046837 ~ 15048781 (-) False XLOC_002658
TCONS_00004939 mRNA upstream 104628 15047909 ~ 15048781 (-) True XLOC_002658
TCONS_00004940 mRNA upstream 107188 15050469 ~ 15053614 (-) False XLOC_002659
TCONS_00004941 mRNA upstream 109417 15052698 ~ 15053507 (-) True XLOC_002659
TCONS_00004944 mRNA upstream 177430 15120711 ~ 15128771 (-) True XLOC_002661
TCONS_00004928 other downstream 162254 14732283 ~ 14732399 (-) True XLOC_002653
TCONS_00004922 other downstream 406499 14326826 ~ 14488154 (-) False XLOC_002649
TCONS_00004920 other downstream 962957 13931569 ~ 13931696 (-) True XLOC_002648
TCONS_00004919 other downstream 1282405 13612133 ~ 13612248 (-) True XLOC_002647
TCONS_00004918 other downstream 1287510 13607027 ~ 13607143 (-) True XLOC_002646
TCONS_00004948 other upstream 394029 15337310 ~ 15340332 (-) False XLOC_002662
TCONS_00004954 other upstream 674935 15618216 ~ 15619015 (-) False XLOC_002664
TCONS_00004975 other upstream 2134152 17077433 ~ 17083377 (-) False XLOC_002675
TCONS_00004978 other upstream 2161017 17104298 ~ 17132910 (-) True XLOC_002678
TCONS_00004980 other upstream 2202538 17145819 ~ 17156675 (-) True XLOC_002679

Expression Profile

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