rs28324490 SNP Detail

Summary

• ID
  rs28324490
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr2:79957901 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        CTCTTTGAAA CAGATATCTC TCGTTCGTTC AATGGCTATA
  AAAATGGCTT CCTTTTTAAA AGTTATTCTC TGCTGTTTGC ATTATTGGGG TGCTTTCATG
  Y
  GAGGCACCAC AATACCATGG ATTGCTTCAT GTAATGGAAA ATATGTATAC ACTGAGAGCA
  CTCTATGTCC AGATGGAGAA GAGTAGAGAG GATTTGGACT                      
  
  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	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	WSB/EiJ
ss38183121	NES09240824	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	T	C	C	C
SNP Consensus Information
SNP					Consensus Type	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	WSB/EiJ
rs28324490					SNP	C	C	C	C	C	T	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
ss38183121	NES09240824	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:79957901 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi11847	CpG island 11847			1401 bp proximal
Pde1a	phosphodiesterase 1A, calmodulin-dependent			Intron
				Noncoding-Transcript-Variant
Rr373421	regulatory region 373421			352 bp downstream
Rr560060	regulatory region 560060			499 bp distal
Rr560061	regulatory region 560061			1372 bp proximal
Rr560062	regulatory region 560062			1891 bp proximal
Tssr24917	transcription start site region 24917			1383 bp downstream
Tssr24918	transcription start site region 24918			1456 bp downstream
Tssr24919	transcription start site region 24919			1560 bp downstream
Tssr24920	transcription start site region 24920			1603 bp downstream
Tssr24921	transcription start site region 24921			1626 bp downstream
Tssr24922	transcription start site region 24922			1660 bp downstream
Tssr24923	transcription start site region 24923			1687 bp downstream
Tssr24924	transcription start site region 24924			1733 bp downstream
Tssr24925	transcription start site region 24925			1978 bp downstream