rs4160624 SNP Detail

Summary

• ID
  rs4160624
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  111
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr16:9811274 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCCCCATGCG AGGGTTACAA
  CAAGCGCTTG AAAGTGTAGG TGCTCTTTGT GACCCCGGGC TCTCAGGTGC ACAGGGGAAC
  TTGAGGCCGG ACTCCCCACC ACTACCTTGC TGGGAGAAGC TCTATGTCAA GCCTCCCTGG
  ACCCGCCCCC TACACACGGG TACGCACAAG CAACATACAA TCTCATGCCG TGTGAAATGC
  Y
  GAATTCTGGA GAGTAGGAGC TCTGCCTTCC ACCCCCACCC TAACACCCCG CAAGTGGGCC
  AGCGCGTGGG AGCTGGCAAA GAACGTGCGG GGGTGGGGGT AGGCTCCCAA AAAGCTCTCA
  GATAGATGAG GAGTGTGCAT CCCCTCCTCA GTCTTTCCAC TGCAGACCCT GGAGCCAAAT
  CTTAGATGCA CGTGGGCAGT                                            
  
  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	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss6322632	mCV25391536_7625940	CRAMUS	CRAMUS_MOUSE	f	SNP		C					T		T
ss39477295	mCV25391536	ABI	CRAMUS_MOUSE	f	SNP		C					T		T
ss63642047	NES17050194	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	T	T	T		C	T	T	T	C	T	T	C	T
ss147843009	ENSMUSSNP4726023	ENSEMBL	ENSEMBL_Sanger	f	SNP		C							T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs4160624					SNP	C	C	C	T	T	T	T	C	T	T	T	C	T	T	C	T

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
ss63642047	NES17050194	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr16:9811274 () rs orientation: forward

Symbol	Name	Function Class
Cpgi7945	CpG island 7945	within coordinates
Grin2a	glutamate receptor, ionotropic, NMDA2A (epsilon 1)	within coordinates
Rr511422	regulatory region 511422	387 bp distal
Rr511423	regulatory region 511423	478 bp proximal
Rr511424	regulatory region 511424	614 bp proximal
Rr511425	regulatory region 511425	1162 bp proximal
Tssr139893	transcription start site region 139893	1137 bp downstream
Tssr139894	transcription start site region 139894	1590 bp downstream
Tssr139895	transcription start site region 139895	1634 bp downstream
Tssr139896	transcription start site region 139896	1889 bp downstream
Tssr139897	transcription start site region 139897	1905 bp downstream
Tssr139898	transcription start site region 139898	1938 bp downstream
Tssr139899	transcription start site region 139899	1968 bp downstream