rs31383549 SNP Detail

Summary

• ID
  rs31383549
• Variation Type
  SNP
• Alleles
  A/C

• 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
  Chr3:90521304 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        TTGGCTCCGT GAGTAGCCCC TGTCCCGGTT CCCCCTCCTG
  CCTCTCATCT GAGTGGCATT TAATCACAGT TCCTGATCTT ACTTCCTGTG GAGGGATGCT
  M
  GTATGCCTCC ATGCTGCCCT GTCCCCTGAG GGAGGAGCAG GGGCTGAGGA GAGTAAATCA
  AGGTAAACCC AAGCTGAAGG CCCATCTTTG GTCCCAACG                       
  
  M = A/C
  

  
  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	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss45528719	mCV24984920	ABI	CRAMUS_MOUSE	f	SNP		C	C					C		A
ss60424268	NES15923481	PERLEGEN	MM_PANEL2	f	SNP	C		C	C	C	C	C		C	A	C	A		C	C	C	C		A
ss135477202	ENSMUSSNP2526863	ENSEMBL	ENSEMBL_Sanger	f	SNP		C	C							A
ss320838154	CHEV_3_90417919	CHEVERUD	SCREENING_POP	f	SNP													C					A
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs31383549					SNP	C	C	C	C	C	C	C	C	C	A	C	A	C	C	C	C	C	A	A

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
ss60424268	NES15923481	PERLEGEN	MM_PANEL	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90521304 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13468	CpG island 13468			631 bp distal
Gm57853	predicted gene, 57853			Intron
				Noncoding-Transcript-Variant
Rr397814	regulatory region 397814			1424 bp upstream
Rr580416	regulatory region 580416			1614 bp distal
Rr580417	regulatory region 580417			682 bp distal
Rr580418	regulatory region 580418			1188 bp distal
Rr580419	regulatory region 580419			1585 bp proximal
S100a6	S100 calcium binding protein A6 (calcyclin)			Intron
				Noncoding-Transcript-Variant
Tssr30242	transcription start site region 30242			1701 bp downstream
Tssr30243	transcription start site region 30243			1132 bp downstream
Tssr30244	transcription start site region 30244			1116 bp downstream
Tssr30245	transcription start site region 30245			1018 bp downstream
Tssr30246	transcription start site region 30246			840 bp downstream
Tssr30247	transcription start site region 30247			805 bp downstream
Tssr30248	transcription start site region 30248			705 bp downstream
Tssr30249	transcription start site region 30249			461 bp downstream
Tssr30250	transcription start site region 30250			228 bp downstream
Tssr30251	transcription start site region 30251			144 bp downstream
Tssr30252	transcription start site region 30252			349 bp upstream
Tssr30253	transcription start site region 30253			373 bp upstream
Tssr34246	transcription start site region 34246			414 bp downstream