rs48558039 SNP Detail

Summary

• ID
  rs48558039
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr17:31898289 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCGGCCAACC TGTAACTAGC
  ATTTTGCTGA CGACCAGGCA GCTTATGCTA AGTCATAAGC CATAACCTGG ACTCTAATCA
  GCCAAGGCAC TCACTGACCA TTCAACCATT CTACTCTACC CAACCCTCTA ATCTATAACC
  AGTTAGCTTA ATCTATAATC AGTTGTCTGA CCCAGTATAC CCAGCAATGA ATCGGCACTG
  Y
  CCAGTCCTTG GGTCTGGAGG TCAATGTGGA TCTTACCTGT GGGGCCAGGT GACAGTCCCA
  GCCCCAGGAC ACACCAGCTT TCTTGGCTTG AGGAAGCAGA GGAGTGACGG TTGGTTCTGA
  TGGCTGAGCT CTTCCTTGTC CTATGTGATC CAGCCCATCA GGGACCATAC AGCTGTTCCC
  CCATCCTTTG TCTCTGGAGC                                            
  
  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
ss60257439	NES15753531	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	T	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
rs48558039					SNP	C	C	C	C	C	C	C	C	C	C	C	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
ss60257439	NES15753531	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:31898289 () rs orientation: forward

Symbol	Name	Function Class
Cryaa	crystallin, alpha A	within coordinates
D17Rua3	DNA segment, Chr 17, Rutgers University 3	within coordinates
Gm50222	predicted gene, 50222	within coordinates
Rr525551	regulatory region 525551	1735 bp proximal
Tssr5085	transcription start site region 5085	1946 bp upstream
Tssr143680	transcription start site region 143680	1376 bp downstream
Tssr143681	transcription start site region 143681	381 bp downstream
Tssr143682	transcription start site region 143682	254 bp upstream
Tssr143683	transcription start site region 143683	324 bp upstream
Tssr143684	transcription start site region 143684	1687 bp upstream
Tssr143685	transcription start site region 143685	1727 bp upstream
Tssr143686	transcription start site region 143686	1828 bp upstream
Tssr143687	transcription start site region 143687	1846 bp upstream
Tssr143688	transcription start site region 143688	1980 bp upstream
Tssr147305	transcription start site region 147305	1191 bp upstream
Tssr147306	transcription start site region 147306	1149 bp upstream
Tssr147307	transcription start site region 147307	1121 bp upstream
Tssr147308	transcription start site region 147308	775 bp upstream
Tssr147309	transcription start site region 147309	1955 bp downstream