AMD1 (adenosylmethionine decarboxylase 1) - Rat Genome Database

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Gene: AMD1 (adenosylmethionine decarboxylase 1) Canis lupus familiaris
Analyze
Symbol: AMD1
Name: adenosylmethionine decarboxylase 1
RGD ID: 12231731
Description: ENCODES a protein that exhibits adenosylmethionine decarboxylase activity (ortholog); putrescine binding (ortholog); INVOLVED IN polyamine metabolic process (ortholog); S-adenosylmethionine metabolic process (ortholog); spermidine biosynthetic process (ortholog); PARTICIPATES IN glycine N-methyltransferase deficiency pathway; homocystinuria pathway; hypermethioninemia pathway; ASSOCIATED WITH developmental and epileptic encephalopathy 87 (ortholog); genetic disease (ortholog); lung non-small cell carcinoma (ortholog); FOUND IN cytosol (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: S-adenosylmethionine decarboxylase proenzyme
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11267,432,871 - 67,453,791 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1267,448,141 - 67,451,696 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1267,251,123 - 67,272,026 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01268,311,059 - 68,331,965 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1268,311,069 - 68,334,115 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11267,662,003 - 67,682,902 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01267,507,932 - 67,528,835 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01267,786,118 - 67,807,019 (+)NCBIUU_Cfam_GSD_1.0
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

Biological Process

Cellular Component
cytosol  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
AMD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11267,432,871 - 67,453,791 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1267,448,141 - 67,451,696 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1267,251,123 - 67,272,026 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01268,311,059 - 68,331,965 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1268,311,069 - 68,334,115 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11267,662,003 - 67,682,902 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01267,507,932 - 67,528,835 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01267,786,118 - 67,807,019 (+)NCBIUU_Cfam_GSD_1.0
AMD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386110,814,617 - 110,895,713 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6110,874,770 - 110,898,879 (+)EnsemblGRCh38hg38GRCh38
GRCh376111,135,820 - 111,216,916 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366111,302,680 - 111,323,606 (+)NCBINCBI36Build 36hg18NCBI36
Build 346111,302,680 - 111,323,599NCBI
Celera6111,942,595 - 111,963,525 (+)NCBICelera
Cytogenetic Map6q21NCBI
HuRef6108,767,311 - 108,788,282 (+)NCBIHuRef
CHM1_16111,459,114 - 111,480,041 (+)NCBICHM1_1
T2T-CHM13v2.06111,993,221 - 112,074,322 (+)NCBIT2T-CHM13v2.0
Amd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391040,163,454 - 40,178,184 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1040,163,454 - 40,178,184 (-)EnsemblGRCm39 Ensembl
GRCm381040,287,458 - 40,302,188 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1040,287,458 - 40,302,188 (-)EnsemblGRCm38mm10GRCm38
MGSCv371040,007,265 - 40,021,992 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361039,976,874 - 39,991,588 (-)NCBIMGSCv36mm8
Celera1036,613,234 - 36,615,716 (-)NCBICelera
Cytogenetic Map10B1NCBI
cM Map1021.85NCBI
Amd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82045,250,289 - 45,324,939 (-)NCBIGRCr8
mRatBN7.22043,695,783 - 43,711,476 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2043,697,237 - 43,711,476 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2045,444,766 - 45,460,459 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02045,103,953 - 45,119,647 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02045,848,695 - 45,864,247 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02045,384,000 - 45,399,694 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2045,384,000 - 45,399,694 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02047,103,749 - 47,119,386 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42044,452,475 - 44,468,111 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12044,475,485 - 44,491,122 (-)NCBI
Celera2044,399,688 - 44,415,381 (-)NCBICelera
Cytogenetic Map20q12NCBI
Amd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541135,541,517 - 35,563,209 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541135,541,517 - 35,563,209 (+)NCBIChiLan1.0ChiLan1.0
AMD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25130,884,293 - 130,905,305 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16128,770,354 - 128,794,437 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06108,678,741 - 108,699,695 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16112,761,072 - 112,782,074 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6112,761,072 - 112,782,074 (+)Ensemblpanpan1.1panPan2
Amd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946102,381,927 - 102,400,701 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365646,656,746 - 6,673,462 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365646,656,789 - 6,675,564 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
AMD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl176,839,731 - 76,863,738 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1176,839,448 - 76,863,745 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2186,399,564 - 86,423,858 (-)NCBISscrofa10.2Sscrofa10.2susScr3
AMD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11362,977,659 - 62,999,150 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604035,281,244 - 35,302,558 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Amd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249161,837,242 - 1,854,883 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249161,837,258 - 1,855,450 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in AMD1
178 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 5 5 16 6 6 5 12 8 10 5
Low 6 6 6 1 1
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005627711 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005627712 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022426451 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038492634 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038492635 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038492636 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038554951 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038554952 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038554954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038618822 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038618823 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038618824 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038684373 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038684374 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038684375 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000012 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000127 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000012 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000357 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000012 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSCAFT00000006286   ⟹   ENSCAFP00000005824
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1267,448,141 - 67,451,696 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845028792   ⟹   ENSCAFP00845022658
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1268,311,069 - 68,330,255 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845028843   ⟹   ENSCAFP00845022694
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1268,311,414 - 68,334,115 (+)Ensembl
RefSeq Acc Id: XM_005627711   ⟹   XP_005627768
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11267,432,871 - 67,453,791 (+)NCBI
Dog10K_Boxer_Tasha1267,251,123 - 67,272,026 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005627712   ⟹   XP_005627769
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11267,434,537 - 67,453,791 (+)NCBI
Dog10K_Boxer_Tasha1267,252,769 - 67,272,026 (+)NCBI
Sequence:
RefSeq Acc Id: XM_022426451   ⟹   XP_022282159
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11267,434,360 - 67,453,791 (+)NCBI
Dog10K_Boxer_Tasha1267,252,588 - 67,272,026 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038492634   ⟹   XP_038348562
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11267,662,003 - 67,682,902 (+)NCBI
RefSeq Acc Id: XM_038492635   ⟹   XP_038348563
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11267,663,632 - 67,682,902 (+)NCBI
RefSeq Acc Id: XM_038492636   ⟹   XP_038348564
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11267,663,452 - 67,682,902 (+)NCBI
RefSeq Acc Id: XM_038554951   ⟹   XP_038410879
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01267,786,118 - 67,807,019 (+)NCBI
RefSeq Acc Id: XM_038554952   ⟹   XP_038410880
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01267,787,780 - 67,807,019 (+)NCBI
RefSeq Acc Id: XM_038554954   ⟹   XP_038410882
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01267,787,599 - 67,807,019 (+)NCBI
RefSeq Acc Id: XM_038618822   ⟹   XP_038474750
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01267,507,932 - 67,528,835 (+)NCBI
RefSeq Acc Id: XM_038618823   ⟹   XP_038474751
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01267,509,590 - 67,528,835 (+)NCBI
RefSeq Acc Id: XM_038618824   ⟹   XP_038474752
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01267,509,400 - 67,528,835 (+)NCBI
RefSeq Acc Id: XM_038684373   ⟹   XP_038540301
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01268,311,059 - 68,331,965 (+)NCBI
RefSeq Acc Id: XM_038684374   ⟹   XP_038540302
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01268,312,726 - 68,331,965 (+)NCBI
RefSeq Acc Id: XM_038684375   ⟹   XP_038540303
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01268,312,536 - 68,331,965 (+)NCBI
RefSeq Acc Id: XP_005627768   ⟸   XM_005627711
- Peptide Label: isoform X1
- UniProtKB: A0A8C0L2E5 (UniProtKB/TrEMBL),   A0A8C0ME21 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005627769   ⟸   XM_005627712
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_022282159   ⟸   XM_022426451
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSCAFP00000005824   ⟸   ENSCAFT00000006286
RefSeq Acc Id: XP_038348562   ⟸   XM_038492634
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038348564   ⟸   XM_038492636
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038348563   ⟸   XM_038492635
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038474750   ⟸   XM_038618822
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038474752   ⟸   XM_038618824
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038474751   ⟸   XM_038618823
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038540301   ⟸   XM_038684373
- Peptide Label: isoform X1
- UniProtKB: A0A8C0L2E5 (UniProtKB/TrEMBL),   A0A8C0ME21 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038540303   ⟸   XM_038684375
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038540302   ⟸   XM_038684374
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038410879   ⟸   XM_038554951
- Peptide Label: isoform X1
- UniProtKB: A0A8C0L2E5 (UniProtKB/TrEMBL),   A0A8C0ME21 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038410882   ⟸   XM_038554954
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038410880   ⟸   XM_038554952
- Peptide Label: isoform X2
RefSeq Acc Id: ENSCAFP00845022694   ⟸   ENSCAFT00845028843
RefSeq Acc Id: ENSCAFP00845022658   ⟸   ENSCAFT00845028792

Promoters
RGD ID:13685534
Promoter ID:EPDNEW_C3601
Type:single initiation site
Name:AMD1_1
Description:adenosylmethionine decarboxylase 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11267,433,143 - 67,433,203EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000003905 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030006423 UniProtKB/TrEMBL
  ENSCAFG00040008584 UniProtKB/TrEMBL
  ENSCAFG00845016165 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000006286.5 UniProtKB/TrEMBL
  ENSCAFT00000102169.1 UniProtKB/TrEMBL
  ENSCAFT00000107350.1 UniProtKB/TrEMBL
  ENSCAFT00030011838.1 UniProtKB/TrEMBL
  ENSCAFT00030011882.1 UniProtKB/TrEMBL
  ENSCAFT00040016102.1 UniProtKB/TrEMBL
  ENSCAFT00040016134.1 UniProtKB/TrEMBL
  ENSCAFT00845028792.1 UniProtKB/TrEMBL
  ENSCAFT00845028843.1 UniProtKB/TrEMBL
Gene3D-CATH S-adenosylmethionine decarboxylase UniProtKB/TrEMBL
  S-adenosylmethionine decarboxylase UniProtKB/TrEMBL
InterPro AdoMetDC-like UniProtKB/TrEMBL
  S-AdoMet_decarboxylase UniProtKB/TrEMBL
  S-AdoMet_deCO2ase_core UniProtKB/TrEMBL
  S-AdoMet_deCO2ase_CS UniProtKB/TrEMBL
NCBI Gene AMD1 ENTREZGENE
PANTHER PTHR11570 UniProtKB/TrEMBL
  S-ADENOSYLMETHIONINE DECARBOXYLASE PROENZYME UniProtKB/TrEMBL
Pfam SAM_decarbox UniProtKB/TrEMBL
PIRSF S-AdenosylMet_decarboxylase UniProtKB/TrEMBL
PROSITE ADOMETDC UniProtKB/TrEMBL
Superfamily-SCOP SSF56276 UniProtKB/TrEMBL
UniProt A0A8C0L2E5 ENTREZGENE
  A0A8C0ME21 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0QGV6_CANLF UniProtKB/TrEMBL
  A0A8I3NNS0_CANLF UniProtKB/TrEMBL
  A0A8I3NNU6_CANLF UniProtKB/TrEMBL
  A0A8P0N6R7_CANLF UniProtKB/TrEMBL
  A0A8P0PI74_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:37827 ENTREZGENE