Tcn2 (transcobalamin 2) - Rat Genome Database

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Gene: Tcn2 (transcobalamin 2) Rattus norvegicus
Analyze
Symbol: Tcn2
Name: transcobalamin 2
RGD ID: 620681
Description: Enables cobalamin binding activity. Predicted to be involved in cobalamin transport. Located in extracellular space. Human ortholog(s) of this gene implicated in Parkinson's disease; megaloblastic anemia; and transcobalamin II deficiency. Orthologous to human TCN2 (transcobalamin 2); INTERACTS WITH 1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: TC II; TC-2; Tc2; TCII; Tcn2p; transcobalamin II; transcobalamin II precursor; transcobalamin-2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81483,036,935 - 83,052,187 (-)NCBIGRCr8
mRatBN7.21478,813,343 - 78,828,549 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1478,813,343 - 78,828,489 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1483,254,381 - 83,269,024 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01484,494,463 - 84,509,106 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01480,940,036 - 80,954,783 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01484,173,992 - 84,189,299 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1484,174,138 - 84,189,266 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01484,857,864 - 84,873,021 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41484,579,191 - 84,593,641 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11484,598,335 - 84,612,786 (-)NCBI
Celera1477,725,351 - 77,739,968 (-)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Tcn2Ratacute lymphoblastic leukemia  ISOTCN2 (Homo sapiens)11059889protein:altered activity:plasma:RGD 
Tcn2Ratacute myeloid leukemia  ISOTCN2 (Homo sapiens)11060122protein:increased expression::RGD 
Tcn2RatBlast Crisis  ISOTCN2 (Homo sapiens)11060122protein:increased expression::RGD 
Tcn2RatCOVID-19  ISOTCN2 (Homo sapiens)9068941mRNA:increased expression:peripheral blood mononuclear cell (human)RGDPMID:32228226 and REF_RGD_ID:28912744
Tcn2Ratcryoglobulinemia  ISOTCN2 (Homo sapiens)11060121associated with Glomerulonephritis and protein:increased expression:serum:RGD 
Tcn2Ratmegaloblastic anemia  ISOTCN2 (Homo sapiens)1580450 RGD 
Tcn2RatParkinson's disease  ISOTCN2 (Homo sapiens)11060125 RGD 
Tcn2RatRefractory Anemia  ISOTCN2 (Homo sapiens)11060122protein:increased expression::RGD 
Object Symbol
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Original Reference(s)
Tcn2Ratgenetic disease  ISOTCN2 (Homo sapiens)8554872ClinVar Annotator: match by term: Inborn genetic diseasesClinVarPMID:20352340 more ...
Tcn2Ratpancytopenia  ISOTCN2 (Homo sapiens)8554872ClinVar Annotator: match by term: PancytopeniaClinVarPMID:16199547 more ...
Tcn2Rattranscobalamin II deficiency  ISOTCN2 (Homo sapiens)8554872ClinVar Annotator: match by term: Transcobalamin II deficiencyClinVarPMID:10518276 more ...
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Original Reference(s)
Tcn2Ratadenoma  ISOTCN2 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:17389618
Tcn2Ratautistic disorder  ISOTCN2 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:16917939
Tcn2Ratcleft lip  ISOTCN2 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:16470748
Tcn2RatColorectal Neoplasms  ISOTCN2 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:17389618
Tcn2RatDrug-Related Side Effects and Adverse Reactions  ISOTCN2 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:15753437
Tcn2Ratesophagus squamous cell carcinoma  ISOTCN2 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:29379198
Tcn2RatLeukoencephalopathies  ISOTCN2 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:15753437
Tcn2Ratmegaloblastic anemia  ISOTCN2 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:4627864
Tcn2RatProstatic Neoplasms  ISOTCN2 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:17013881
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Original Reference(s)
Tcn2Rattranscobalamin II deficiency  ISOTCN2 (Homo sapiens)7240710 OMIM 

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Original Reference(s)
Tcn2Rat(1->4)-beta-D-glucan multiple interactionsISOTcn2 (Mus musculus)6480464[perfluorooctane sulfonic acid co-treated with Cellulose] results in increased expression of TCN2 mRNACTDPMID:36331819
Tcn2Rat1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane affects expressionEXP 64804642 more ...CTDPMID:19414516
Tcn2Rat1,2-dimethylhydrazine increases expressionISOTcn2 (Mus musculus)64804641 and 2-Dimethylhydrazine results in increased expression of TCN2 mRNACTDPMID:22206623
Tcn2Rat1,2-dimethylhydrazine multiple interactionsISOTcn2 (Mus musculus)6480464[1 and 2-Dimethylhydrazine co-treated with Folic Acid] results in increased expression of TCN2 mRNACTDPMID:22206623
Tcn2Rat17alpha-ethynylestradiol affects expressionISOTcn2 (Mus musculus)6480464Ethinyl Estradiol affects the expression of TCN2 mRNACTDPMID:17555576
Tcn2Rat17alpha-ethynylestradiol increases expressionISOTcn2 (Mus musculus)6480464Ethinyl Estradiol results in increased expression of TCN2 mRNACTDPMID:16174780 and PMID:17942748
Tcn2Rat17alpha-ethynylestradiol multiple interactionsISOTcn2 (Mus musculus)6480464[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of TCN2 mRNACTDPMID:17942748
Tcn2Rat17alpha-ethynylestradiol decreases expressionEXP 6480464Ethinyl Estradiol results in decreased expression of TCN2 mRNACTDPMID:16174780
Tcn2Rat17beta-estradiol multiple interactionsISOTCN2 (Homo sapiens)6480464[Estradiol co-treated with TGFB1 protein] results in decreased expression of TCN2 mRNACTDPMID:30165855
Tcn2Rat17beta-estradiol decreases expressionISOTcn2 (Mus musculus)6480464Estradiol results in decreased expression of TCN2 mRNACTDPMID:39298647
Tcn2Rat2,3,7,8-tetrachlorodibenzodioxine multiple interactionsISOTcn2 (Mus musculus)6480464[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of TCN2 mRNACTDPMID:17942748
Tcn2Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionEXP 6480464Tetrachlorodibenzodioxin results in increased expression of TCN2 mRNACTDPMID:34747641
Tcn2Rat2,3,7,8-tetrachlorodibenzodioxine decreases expressionISOTcn2 (Mus musculus)6480464Tetrachlorodibenzodioxin results in decreased expression of TCN2 mRNACTDPMID:33956508
Tcn2Rat2,3,7,8-tetrachlorodibenzodioxine decreases expressionEXP 6480464Tetrachlorodibenzodioxin results in decreased expression of TCN2 mRNACTDPMID:21215274
Tcn2Rat2,3,7,8-tetrachlorodibenzodioxine multiple interactionsEXP 6480464AHR protein alternative form affects the reaction [Tetrachlorodibenzodioxin results in decreased expression of TCN2 mRNA]CTDPMID:21215274
Tcn2Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionISOTcn2 (Mus musculus)6480464Tetrachlorodibenzodioxin results in increased expression of TCN2 mRNACTDPMID:17942748
Tcn2Rat2-hydroxypropanoic acid increases expressionISOTCN2 (Homo sapiens)6480464Lactic Acid results in increased expression of TCN2 mRNACTDPMID:30851411
Tcn2Rat3,3',4,4',5-pentachlorobiphenyl decreases expressionEXP 64804643 more ...CTDPMID:23196670
Tcn2Rat3,4-methylenedioxymethamphetamine increases expressionISOTcn2 (Mus musculus)6480464N-Methyl-3 and 4-methylenedioxyamphetamine results in increased expression of TCN2 mRNACTDPMID:20188158
Tcn2Rat4,4'-sulfonyldiphenol affects expressionISOTcn2 (Mus musculus)6480464bisphenol S affects the expression of TCN2 mRNACTDPMID:39298647

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Biological Process
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Original Reference(s)
Tcn2Ratcobalamin transport  TAS 724784 RGD 
Tcn2Ratcobalamin transport involved_inISOTcn2 (Mus musculus)1624291 PMID:21655200 and PMID:237480RGDPMID:21655200 and PMID:237480
Tcn2Ratcobalamin transport involved_inIBAMGI:1202394 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Tcn2Ratcobalamin transport involved_inIEAInterPro:IPR0021571600115GO_REF:0000002InterProGO_REF:0000002
Tcn2Ratcobalamin transport involved_inISOTCN2 (Homo sapiens)1624291 PMID:8443384RGDPMID:8443384
Tcn2Ratcobalamin transport involved_inIEAUniProtKB:O88968 and ensembl:ENSMUSP000001056201600115GO_REF:0000107EnsemblGO_REF:0000107
Tcn2Ratcobalamin transport involved_inISSUniProtKB:P200621600115GO_REF:0000024UniProtGO_REF:0000024
Tcn2Ratcobalamin transport involved_inIEAUniProtKB:P20062 and ensembl:ENSP000002158381600115GO_REF:0000107EnsemblGO_REF:0000107
Tcn2Ratcobalt ion transport involved_inIEAUniProtKB-KW:KW-01711600115GO_REF:0000043UniProtGO_REF:0000043
Tcn2Ratmonoatomic ion transport involved_inIEAUniProtKB-KW:KW-04061600115GO_REF:0000043UniProtGO_REF:0000043
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Cellular Component
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Original Reference(s)
Tcn2Ratexternal side of plasma membrane is_active_inISOTcn2 (Mus musculus)1624291 PMID:237480RGDPMID:237480
Tcn2Ratexternal side of plasma membrane is_active_inIEAUniProtKB:O88968 and ensembl:ENSMUSP000001056201600115GO_REF:0000107EnsemblGO_REF:0000107
Tcn2Ratextracellular region located_inIEAUniProtKB-SubCell:SL-02431600115GO_REF:0000044UniProtGO_REF:0000044
Tcn2Ratextracellular region located_inIEAUniProtKB-KW:KW-09641600115GO_REF:0000043UniProtGO_REF:0000043
Tcn2Ratextracellular space  IDA 1601486 RGD 
Tcn2Ratextracellular space is_active_inIEAUniProtKB:O88968 and ensembl:ENSMUSP000001056201600115GO_REF:0000107EnsemblGO_REF:0000107
Tcn2Ratextracellular space is_active_inIBAMGI:1202394 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Tcn2Ratextracellular space is_active_inISOTcn2 (Mus musculus)1624291 PMID:21655200RGDPMID:21655200
Tcn2Ratextracellular space located_inIEAUniProtKB:P20062 and ensembl:ENSP000002158381600115GO_REF:0000107EnsemblGO_REF:0000107
Tcn2Ratextracellular space located_inISOTCN2 (Homo sapiens)1624291 PMID:8443384RGDPMID:8443384
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Molecular Function
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Original Reference(s)
Tcn2Ratcargo receptor ligand activity enablesIEAUniProtKB:O88968 and ensembl:ENSMUSP000001056201600115GO_REF:0000107EnsemblGO_REF:0000107
Tcn2Ratcargo receptor ligand activity enablesISOTcn2 (Mus musculus)1624291 PMID:237480RGDPMID:237480
Tcn2Ratcargo receptor ligand activity enablesISOTCN2 (Homo sapiens)1624291 PMID:3782074RGDPMID:3782074
Tcn2Ratcobalamin binding  IDA 1601485 RGD 
Tcn2Ratcobalamin binding enablesISOTcn2 (Mus musculus)1624291 PMID:21655200RGDPMID:21655200
Tcn2Ratcobalamin binding enablesIBAMGI:1202394 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Tcn2Ratcobalamin binding enablesIEAInterPro:IPR0021571600115GO_REF:0000002InterProGO_REF:0000002
Tcn2Ratcobalamin binding enablesIEAUniProtKB:O88968 and ensembl:ENSMUSP000001056201600115GO_REF:0000107EnsemblGO_REF:0000107
Tcn2Ratcobalamin binding enablesIEAUniProtKB:P20062 and ensembl:ENSP000002158381600115GO_REF:0000107EnsemblGO_REF:0000107
Tcn2Ratcobalamin binding enablesISOTCN2 (Homo sapiens)1624291 PMID:16537422 more ...RGDPMID:16537422 more ...
Tcn2Ratmetal ion binding enablesIEAUniProtKB-KW:KW-04791600115GO_REF:0000043UniProtGO_REF:0000043
Tcn2Ratmolecular carrier activity enablesIEAUniProtKB:O88968 and ensembl:ENSMUSP000001056201600115GO_REF:0000107EnsemblGO_REF:0000107
Tcn2Ratmolecular carrier activity enablesISOTcn2 (Mus musculus)1624291 PMID:21655200RGDPMID:21655200
Tcn2Ratprotein binding enablesISOTCN2 (Homo sapiens)1624291UniProtKB:Q9NPF0 and PMID:27411955RGDPMID:27411955
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Reference Title
Reference Citation
1. Transcobalamin II. A specific marker of renal involvement in essential mixed cryoglobulinemia. Biosca M, etal., Nephron. 1987;45(3):255-6.
2. Transfer of cobalamin from intrinsic factor to transcobalamin II. Brada N, etal., J Nutr Biochem. 2001 Apr;12(4):200-206.
3. Binding of vitamin B12--rat transcobalamin II and free vitamin B12 to plasma membranes isolated from rat liver. Fiedler-Nagy C, etal., Br J Haematol. 1975 Nov;31(3):311-21.
4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. [Transcobalamin II levels in blood plasma of children with acute leukemia]. Gudkova MV, etal., Gematol Transfuziol. 1996 Mar-Apr;41(2):10-3.
6. Identification of two mutant alleles of transcobalamin II in an affected family. Li N, etal., Hum Mol Genet. 1994 Oct;3(10):1835-40.
7. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
8. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
9. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
10. Vitamin B12-impaired metabolism produces apoptosis and Parkinson phenotype in rats expressing the transcobalamin-oleosin chimera in substantia nigra. Orozco-Barrios CE, etal., PLoS One. 2009 Dec 21;4(12):e8268. doi: 10.1371/journal.pone.0008268.
11. A transcobalamin gene polymorphism and the risk of venous thrombosis. The BRATROS (Brazilian Thrombosis Study). Pereira AC, etal., Thromb Res. 2006 Mar 10;.
12. GOA pipeline RGD automated data pipeline
13. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
14. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
15. Transcobalamin II and its cell surface receptor. Seetharam B and Li N, Vitam Horm 2000;59:337-66.
16. No association between the MTHFR A1298C and transcobalamin C776G genetic polymorphisms and hyperhomocysteinemia in thrombotic disease. Zetterberg H, etal., Thromb Res. 2002 Nov 1;108(2-3):127-31.
17. The three transcobalamins in myeloproliferative disorders and acute leukaemia. Zittoun J, etal., Br J Haematol. 1975 Nov;31(3):287-98.
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PMID:8443384   PMID:15488467   PMID:16537422   PMID:23376485   PMID:24006456   PMID:27411955  



Tcn2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81483,036,935 - 83,052,187 (-)NCBIGRCr8
mRatBN7.21478,813,343 - 78,828,549 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1478,813,343 - 78,828,489 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1483,254,381 - 83,269,024 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01484,494,463 - 84,509,106 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01480,940,036 - 80,954,783 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01484,173,992 - 84,189,299 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1484,174,138 - 84,189,266 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01484,857,864 - 84,873,021 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41484,579,191 - 84,593,641 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11484,598,335 - 84,612,786 (-)NCBI
Celera1477,725,351 - 77,739,968 (-)NCBICelera
Cytogenetic Map14q21NCBI
TCN2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382230,607,174 - 30,627,271 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2230,607,003 - 30,627,271 (+)EnsemblGRCh38hg38GRCh38
GRCh372231,003,161 - 31,023,258 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362229,333,161 - 29,353,047 (+)NCBINCBI36Build 36hg18NCBI36
Build 342229,327,714 - 29,347,601NCBI
Celera2214,802,947 - 14,823,211 (+)NCBICelera
Cytogenetic Map22q12.2NCBI
HuRef2213,965,286 - 13,985,550 (+)NCBIHuRef
CHM1_12230,962,510 - 30,982,925 (+)NCBICHM1_1
T2T-CHM13v2.02231,070,745 - 31,090,856 (+)NCBIT2T-CHM13v2.0
Tcn2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39113,867,077 - 3,882,078 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl113,867,192 - 3,882,159 (-)EnsemblGRCm39 Ensembl
GRCm38113,917,077 - 3,932,078 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl113,917,192 - 3,932,159 (-)EnsemblGRCm38mm10GRCm38
MGSCv37113,817,080 - 3,832,081 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36113,817,193 - 3,831,586 (-)NCBIMGSCv36mm8
Celera114,411,604 - 4,426,160 (-)NCBICelera
Cytogenetic Map11A1NCBI
cM Map112.76NCBI
Tcn2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554554,826,694 - 4,849,613 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554554,827,030 - 4,849,810 (+)NCBIChiLan1.0ChiLan1.0
TCN2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22340,566,388 - 40,586,364 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12243,264,719 - 43,284,822 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02211,635,107 - 11,655,137 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12229,435,506 - 29,455,494 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2229,435,517 - 29,455,494 (+)Ensemblpanpan1.1panPan2
TCN2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12623,693,664 - 23,710,342 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2623,693,773 - 23,709,832 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2623,564,400 - 23,581,079 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02624,077,931 - 24,094,603 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2624,078,013 - 24,094,603 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12623,779,098 - 23,796,016 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02624,042,019 - 24,058,648 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02624,102,548 - 24,119,234 (+)NCBIUU_Cfam_GSD_1.0
Tcn2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118116,620,289 - 116,636,698 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493690495,542 - 113,985 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493690497,535 - 113,886 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TCN2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1447,502,715 - 47,515,965 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11447,496,245 - 47,515,966 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21450,598,159 - 50,627,102 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TCN2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11913,489,849 - 13,511,360 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1913,490,645 - 13,511,810 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666045112,616,329 - 112,637,803 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tcn2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247476,971,289 - 6,987,440 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247476,970,707 - 6,987,946 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in Tcn2
92 total Variants

Predicted Target Of
Summary Value
Count of predictions:48
Count of miRNA genes:42
Interacting mature miRNAs:45
Transcripts:ENSRNOT00000005934
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


1 to 10 of 23 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143766971982669719Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
1582236Gluco22Glucose level QTL 223.30.0164blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147341532392554092Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
70153Bp59Blood pressure QTL 593.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)146875779683368335Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1470053989104886043Rat
1582197Gluco27Glucose level QTL 273.40.0006blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)147341532392554092Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143766971982669719Rat

1 to 10 of 23 rows
AW208754  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21478,813,667 - 78,813,756 (+)MAPPERmRatBN7.2
Rnor_6.01484,174,317 - 84,174,405NCBIRnor6.0
Rnor_5.01484,858,042 - 84,858,130UniSTSRnor5.0
RGSC_v3.41484,579,367 - 84,579,455UniSTSRGSC3.4
Celera1477,725,676 - 77,725,764UniSTS
Cytogenetic Map14q21UniSTS
BE099486  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21478,823,875 - 78,824,030 (+)MAPPERmRatBN7.2
Rnor_6.01484,184,671 - 84,184,825NCBIRnor6.0
Rnor_5.01484,868,396 - 84,868,550UniSTSRnor5.0
RGSC_v3.41484,589,575 - 84,589,729UniSTSRGSC3.4
Celera1477,735,884 - 77,736,038UniSTS
RH 3.4 Map14543.6UniSTS
Cytogenetic Map14q21UniSTS
RH127671  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21478,813,622 - 78,813,839 (+)MAPPERmRatBN7.2
Rnor_6.01484,174,272 - 84,174,488NCBIRnor6.0
Rnor_5.01484,857,997 - 84,858,213UniSTSRnor5.0
RGSC_v3.41484,579,322 - 84,579,538UniSTSRGSC3.4
Celera1477,725,631 - 77,725,847UniSTS
RH 3.4 Map14545.2UniSTS
Cytogenetic Map14q21UniSTS




alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31



Ensembl Acc Id: ENSRNOT00000005934   ⟹   ENSRNOP00000005934
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1478,813,492 - 78,828,489 (-)Ensembl
Rnor_6.0 Ensembl1484,174,138 - 84,189,266 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000093962   ⟹   ENSRNOP00000077856
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1478,813,343 - 78,824,964 (-)Ensembl
RefSeq Acc Id: NM_022534   ⟹   NP_071979
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81483,036,935 - 83,051,552 (-)NCBI
mRatBN7.21478,813,343 - 78,827,960 (-)NCBI
Rnor_6.01484,173,992 - 84,188,755 (-)NCBI
Rnor_5.01484,857,864 - 84,873,021 (-)NCBI
RGSC_v3.41484,579,191 - 84,593,641 (-)RGD
Celera1477,725,351 - 77,739,968 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006251366   ⟹   XP_006251428
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81483,037,082 - 83,052,187 (-)NCBI
mRatBN7.21478,813,490 - 78,828,531 (-)NCBI
Rnor_6.01484,174,139 - 84,189,299 (-)NCBI
Rnor_5.01484,857,864 - 84,873,021 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006251367   ⟹   XP_006251429
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81483,037,082 - 83,052,095 (-)NCBI
mRatBN7.21478,813,490 - 78,828,492 (-)NCBI
Rnor_6.01484,174,139 - 84,189,297 (-)NCBI
Rnor_5.01484,857,864 - 84,873,021 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006251368   ⟹   XP_006251430
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81483,037,082 - 83,052,141 (-)NCBI
mRatBN7.21478,813,490 - 78,828,549 (-)NCBI
Rnor_6.01484,174,139 - 84,189,295 (-)NCBI
Rnor_5.01484,857,864 - 84,873,021 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006251370   ⟹   XP_006251432
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81483,037,082 - 83,052,101 (-)NCBI
mRatBN7.21478,813,490 - 78,828,510 (-)NCBI
Rnor_6.01484,174,139 - 84,189,290 (-)NCBI
Rnor_5.01484,857,864 - 84,873,021 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599370   ⟹   XP_017454859
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81483,037,082 - 83,052,093 (-)NCBI
mRatBN7.21478,813,490 - 78,828,448 (-)NCBI
Rnor_6.01484,174,139 - 84,189,288 (-)NCBI
Sequence:
RefSeq Acc Id: NP_071979   ⟸   NM_022534
- Peptide Label: precursor
- UniProtKB: Q9R0D6 (UniProtKB/Swiss-Prot),   G3V6K1 (UniProtKB/TrEMBL),   A6IKD4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251428   ⟸   XM_006251366
- Peptide Label: isoform X1
- UniProtKB: Q9R0D6 (UniProtKB/Swiss-Prot),   G3V6K1 (UniProtKB/TrEMBL),   A6IKD4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251430   ⟸   XM_006251368
- Peptide Label: isoform X1
- UniProtKB: Q9R0D6 (UniProtKB/Swiss-Prot),   G3V6K1 (UniProtKB/TrEMBL),   A6IKD4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251429   ⟸   XM_006251367
- Peptide Label: isoform X1
- UniProtKB: Q9R0D6 (UniProtKB/Swiss-Prot),   G3V6K1 (UniProtKB/TrEMBL),   A6IKD4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251432   ⟸   XM_006251370
- Peptide Label: isoform X1
- UniProtKB: Q9R0D6 (UniProtKB/Swiss-Prot),   G3V6K1 (UniProtKB/TrEMBL),   A6IKD4 (UniProtKB/TrEMBL)
- Sequence:
Transcobalamin-like C-terminal

Name Modeler Protein Id AA Range Protein Structure
AF-Q9R0D6-F1-model_v2 AlphaFold Q9R0D6 1-427 view protein structure


eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

RGD ID:13699434
Promoter ID:EPDNEW_R9958
Type:initiation region
Name:Tcn2_1
Description:transcobalamin 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01484,189,248 - 84,189,308EPDNEW


1 to 22 of 22 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-15207 BioCyc
Ensembl Genes ENSRNOG00000004280 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000005934 ENTREZGENE
Gene3D-CATH 1.50.10.20 UniProtKB/Swiss-Prot
  2.170.130.30 UniProtKB/Swiss-Prot
InterPro Cbl-bd_prot UniProtKB/Swiss-Prot
  Cobalamin_Transport UniProtKB/Swiss-Prot
  DUF4430 UniProtKB/Swiss-Prot
NCBI Gene 64365 ENTREZGENE
PANTHER TRANSCOBALAMIN-1/GASTRIC INTRINSIC FACTOR UniProtKB/Swiss-Prot
  TRANSCOBALAMIN-2 UniProtKB/Swiss-Prot
Pfam Cobalamin_bind UniProtKB/Swiss-Prot
  DUF4430 UniProtKB/Swiss-Prot
PhenoGen Tcn2 PhenoGen
PROSITE COBALAMIN_BINDING UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000004280 RatGTEx
UniProt A0A8I5YCJ2_RAT UniProtKB/TrEMBL
  A6IKD3_RAT UniProtKB/TrEMBL
  A6IKD4 ENTREZGENE, UniProtKB/TrEMBL
  A6IKD6_RAT UniProtKB/TrEMBL
  G3V6K1 ENTREZGENE, UniProtKB/TrEMBL
  Q9R0D6 ENTREZGENE, UniProtKB/Swiss-Prot
1 to 22 of 22 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-04-22 Tcn2  transcobalamin 2  Tcn2p  transcobalamin II precursor  Symbol and Name updated to reflect Human and Mouse nomenclature 625702 APPROVED
2002-08-07 Tcn2p  transcobalamin II precursor      Symbol and Name status set to provisional 70820 PROVISIONAL

Note Type Note Reference
gene_protein mature product is a nonglycoprotein secretory protein of molecular mass 43 kDa 724784