rs28131231 SNP Detail

Summary

• ID
  rs28131231
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:99122273 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGTATTAGCT AAGCACTTTG
  TACAGGTCAG GGTTTGGTGC ATGACTGCTG GCGTGCTGGT CGACTGTAAC ACAGAGCTGG
  CCCGCTCAGA AGGTATGTCC TTTGCAGAGC CCCCATGGGT GAGTTCTTCC CTGCCTTATC
  TCATGTTCTT TATGGGAATG AACATTAGAA AAGAAAGTCG GAAGAAAATT TGATTATGGG
  Y
  CAATAATTTT ACACTCAGGA GGCAGAGGCT GGTGGGTTCC TGTGAGTGTG AGGCCAACTT
  GGTCTACATT GCCAAGTCTA TGCTAGCCAG GGCTACACAG TAACAGCCTG TATCAAAAAA
  TAAATGAACA AAACAACAAG AATAACAGAA TAAAATACAA AAAAAAAACC CTCTGAAGCT
  GACTGTATCA GTGTAGGACA                                            
  
  Y = C/T
  

  
  Note: Sequence in lower case indicates low-complexity or repetitive sequence

  ---

SNP Assays
and
SNP Consensus

Strain alleles of submitted assays, and consensus values for this SNP

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss38240374	NES09548132	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	C	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs28131231					SNP	C	C	C	C	C	C	T	C	C	C	C	C	C	C

Additional submitted assays for this SNP, where the strain of origin for observed alleles is not specified by the submitter

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	Alleles
ss38240374	NES09548132	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:99122273 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Atg4c	autophagy related 4C, cysteine peptidase			Intron
				Noncoding-Transcript-Variant
Rr595849	regulatory region 595849			462 bp proximal
Rr595850	regulatory region 595850			1257 bp proximal
Rr595851	regulatory region 595851			1351 bp proximal