rs29802271 SNP Detail

Summary

• ID
  rs29802271
• 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
  Chr13:23936362 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GATGGAGGGG AAGAGAGGCG
  GAGAGTGTGC ATGTTCTGAA AGCTTTTTAA CCAGGATTTA GAAGCAGAGG CTGACCAATC
  CCAACAAAGC GCGGGCCCTT TGAATGTTCT TCGGTCCAAT AGCGGATAGT CTGATTGTAT
  AAAAGGTGGA CAGCGCCTTG CAGCTCACTA TAGTGTCAGT CTATTTTCCC TTGTTAAAGT
  Y
  ATGGCTCGTA CTAAGCAGAC CGCTCGCAAG TCCACCGGCG GCAAGGCCCC GCGCAAGCAG
  CTGGCCACCA AGGCCGCCCG CAAGAGCGCC CCGGCCACCG GCGGCGTGAA GAAGCCTCAC
  CGCTACCGTC CCGGCACCGT GGCGCTGCGC GAGATCCGGC GCTACCAGAA GTCGACCGAG
  CTGCTGATCC GCAAGCTGCC                                            
  
  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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	SM/J	WSB/EiJ
ss47383693	NES11348030	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	T	C	T	C	C	T		T	T	C		C
ss324291417	CHEV_13_23844248	CHEVERUD	SCREENING_POP	f	SNP											C				T
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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	SM/J	WSB/EiJ
rs29802271					SNP	C	C	C	C	T	C	T	C	C	T	C	T	T	C	T	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
ss47383693	NES11348030	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:23936362 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5374	CpG island 5374	723 bp distal
Gm54518	predicted gene, 54518	864 bp upstream
H2ac4	H2A clustered histone 4	781 bp downstream
H3c2	H3 clustered histone 2	mRNA-UTR
Rr403663	regulatory region 403663	1239 bp downstream
Rr403664	regulatory region 403664	within coordinates
Rr475938	regulatory region 475938	1243 bp distal
Rr475939	regulatory region 475939	986 bp distal
Rr475940	regulatory region 475940	749 bp distal
Rr475941	regulatory region 475941	102 bp distal
Rr475942	regulatory region 475942	1290 bp proximal
Tssr118860	transcription start site region 118860	1293 bp downstream
Tssr118861	transcription start site region 118861	1261 bp downstream
Tssr118862	transcription start site region 118862	1172 bp downstream
Tssr118863	transcription start site region 118863	28 bp downstream
Tssr121747	transcription start site region 121747	169 bp upstream