Mthfsd (methenyltetrahydrofolate synthetase domain containing) - Rat Genome Database

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Gene: Mthfsd (methenyltetrahydrofolate synthetase domain containing) Rattus norvegicus
Analyze
Symbol: Mthfsd
Name: methenyltetrahydrofolate synthetase domain containing
RGD ID: 1584226
Description: Predicted to enable RNA binding activity. Orthologous to human MTHFSD (methenyltetrahydrofolate synthetase domain containing); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; amphetamine; paracetamol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC687539; similar to CG14648-PA, isoform A
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81966,072,952 - 66,086,917 (-)NCBIGRCr8
mRatBN7.21949,164,266 - 49,178,233 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1949,167,183 - 49,178,232 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1955,955,528 - 55,969,449 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01956,639,266 - 56,653,192 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01958,853,735 - 58,867,640 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01953,025,526 - 53,036,559 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1953,026,294 - 53,034,734 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01963,769,856 - 63,780,217 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1948,413,494 - 48,424,529 (-)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IBA)

Molecular Function
RNA binding  (IEA)

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:22658674   PMID:22681889  


Genomics

Comparative Map Data
Mthfsd
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81966,072,952 - 66,086,917 (-)NCBIGRCr8
mRatBN7.21949,164,266 - 49,178,233 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1949,167,183 - 49,178,232 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1955,955,528 - 55,969,449 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01956,639,266 - 56,653,192 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01958,853,735 - 58,867,640 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01953,025,526 - 53,036,559 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1953,026,294 - 53,034,734 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01963,769,856 - 63,780,217 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1948,413,494 - 48,424,529 (-)NCBICelera
Cytogenetic Map19q12NCBI
MTHFSD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381686,530,186 - 86,555,235 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1686,530,178 - 86,555,235 (-)EnsemblGRCh38hg38GRCh38
GRCh371686,563,792 - 86,588,841 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361685,121,283 - 85,146,342 (-)NCBINCBI36Build 36hg18NCBI36
Celera1670,864,746 - 70,889,806 (-)NCBICelera
Cytogenetic Map16q24.1NCBI
HuRef1672,303,754 - 72,328,732 (-)NCBIHuRef
CHM1_11687,975,494 - 88,000,569 (-)NCBICHM1_1
T2T-CHM13v2.01692,598,486 - 92,623,551 (-)NCBIT2T-CHM13v2.0
Mthfsd
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398121,818,367 - 121,835,152 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8121,818,367 - 121,835,131 (-)EnsemblGRCm39 Ensembl
GRCm388121,091,628 - 121,108,413 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8121,091,628 - 121,108,392 (-)EnsemblGRCm38mm10GRCm38
MGSCv378123,621,457 - 123,632,279 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368123,983,917 - 123,994,295 (-)NCBIMGSCv36mm8
Celera8125,315,508 - 125,326,393 (-)NCBICelera
Cytogenetic Map8E1NCBI
cM Map870.31NCBI
Mthfsd
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555411,358,167 - 1,373,696 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555411,358,167 - 1,372,833 (-)NCBIChiLan1.0ChiLan1.0
MTHFSD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21896,286,871 - 96,311,408 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan116102,204,069 - 102,228,598 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01667,201,360 - 67,225,883 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11686,533,014 - 86,557,519 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1686,533,014 - 86,557,519 (-)Ensemblpanpan1.1panPan2
MTHFSD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1566,307,852 - 66,334,196 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl566,307,955 - 66,331,769 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha566,319,888 - 66,345,179 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0566,529,371 - 66,554,683 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl566,529,555 - 66,553,301 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1566,552,223 - 66,578,601 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0566,387,439 - 66,413,787 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0566,800,721 - 66,827,121 (+)NCBIUU_Cfam_GSD_1.0
Mthfsd
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934926,492,201 - 26,505,770 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366412,247,221 - 2,262,259 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366412,245,752 - 2,259,989 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MTHFSD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl62,561,212 - 2,586,626 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.162,552,110 - 2,593,795 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.262,767,377 - 2,788,902 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MTHFSD
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1571,915,431 - 71,941,989 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl571,917,268 - 71,938,962 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660473,764,993 - 3,791,144 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mthfsd
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247462,610,586 - 2,626,813 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247462,611,629 - 2,626,850 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Mthfsd
77 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:238
Count of miRNA genes:164
Interacting mature miRNAs:184
Transcripts:ENSRNOT00000071373, ENSRNOT00000075179
Prediction methods:Microtar, Miranda, Rnahybrid
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat

Markers in Region
BF405218  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21949,170,607 - 49,170,700 (+)MAPPERmRatBN7.2
Rnor_6.01953,028,949 - 53,029,041NCBIRnor6.0
Rnor_5.01963,773,279 - 63,773,371UniSTSRnor5.0
Celera1948,416,909 - 48,417,001UniSTS
RH 3.4 Map19696.5UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 4 2 2 2 41 14 27
Low 3 39 55 39 19 39 8 11 33 21 14 11 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000071373   ⟹   ENSRNOP00000064613
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1949,167,183 - 49,178,232 (-)Ensembl
Rnor_6.0 Ensembl1953,026,294 - 53,034,734 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000099599   ⟹   ENSRNOP00000083580
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1949,167,183 - 49,178,232 (-)Ensembl
RefSeq Acc Id: NM_001401041   ⟹   NP_001387970
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81966,072,952 - 66,086,880 (-)NCBI
mRatBN7.21949,164,266 - 49,178,196 (-)NCBI
RefSeq Acc Id: XM_039098339   ⟹   XP_038954267
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81966,075,871 - 66,086,917 (-)NCBI
mRatBN7.21949,164,266 - 49,178,233 (-)NCBI
RefSeq Acc Id: XM_039098340   ⟹   XP_038954268
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81966,079,669 - 66,086,917 (-)NCBI
mRatBN7.21949,170,985 - 49,178,233 (-)NCBI
RefSeq Acc Id: XM_063278279   ⟹   XP_063134349
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81966,075,871 - 66,086,845 (-)NCBI
RefSeq Acc Id: XM_063278280   ⟹   XP_063134350
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81966,075,871 - 66,086,845 (-)NCBI
RefSeq Acc Id: XM_063278281   ⟹   XP_063134351
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81966,075,871 - 66,084,989 (-)NCBI
RefSeq Acc Id: XM_063278282   ⟹   XP_063134352
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81966,075,871 - 66,083,868 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000064613   ⟸   ENSRNOT00000071373
RefSeq Acc Id: XP_038954267   ⟸   XM_039098339
- Peptide Label: isoform X1
- UniProtKB: M0R5E8 (UniProtKB/TrEMBL),   A0A8I5ZVM1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038954268   ⟸   XM_039098340
- Peptide Label: isoform X5
RefSeq Acc Id: ENSRNOP00000083580   ⟸   ENSRNOT00000099599
RefSeq Acc Id: NP_001387970   ⟸   NM_001401041
RefSeq Acc Id: XP_063134349   ⟸   XM_063278279
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063134350   ⟸   XM_063278280
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063134351   ⟸   XM_063278281
- Peptide Label: isoform X4
RefSeq Acc Id: XP_063134352   ⟸   XM_063278282
- Peptide Label: isoform X4
Protein Domains
RRM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R5E8-F1-model_v2 AlphaFold M0R5E8 1-365 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1584226 AgrOrtholog
BioCyc Gene G2FUF-5454 BioCyc
BioCyc Pathway 1CMET2-PWY [folate transformations III (E. coli)] BioCyc
BioCyc Pathway Image 1CMET2-PWY BioCyc
Ensembl Genes ENSRNOG00000046443 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000071373.4 UniProtKB/TrEMBL
  ENSRNOT00000099599 ENTREZGENE
  ENSRNOT00000099599.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.70.330 UniProtKB/TrEMBL
  3.40.50.10420 UniProtKB/TrEMBL
InterPro FTHF_cligase UniProtKB/TrEMBL
  FTHF_cligase-like_sf UniProtKB/TrEMBL
  NagB/RpiA_transferase-like UniProtKB/TrEMBL
  Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  RRM_dom UniProtKB/TrEMBL
NCBI Gene 687539 ENTREZGENE
PANTHER METHENYLTETRAHYDROFOLATE SYNTHASE DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
  PTHR13017 UniProtKB/TrEMBL
Pfam 5-FTHF_cyc-lig UniProtKB/TrEMBL
PhenoGen Mthfsd PhenoGen
RatGTEx ENSRNOG00000046443 RatGTEx
SMART RRM UniProtKB/TrEMBL
Superfamily-SCOP SSF100950 UniProtKB/TrEMBL
  SSF54928 UniProtKB/TrEMBL
UniProt A0A8I5ZVM1 ENTREZGENE, UniProtKB/TrEMBL
  M0R5E8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-16 Mthfsd  methenyltetrahydrofolate synthetase domain containing  LOC687539  similar to CG14648-PA, isoform A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC687539  similar to CG14648-PA, isoform A      Symbol and Name status set to provisional 70820 PROVISIONAL