rs30391239 SNP Detail

Summary

• ID
  rs30391239
• 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
  Chr1:92761115 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTTGGGAATG GCAGTAGATA
  GCCAGCCATG GAGAACCCTG TTTCTGGGGA GAGACAGAAC CCACAAGACA CATTGTGTGG
  CCTGAGTCTC TTGACTATCT CCCTCTCAAA TGCCCTCAGA ACAGGCCTTT CTATGCCTCT
  CTCTACATAC AGCCCTGCCA TTGCCAAAGC CACCTCCTAC AGTTCTCTGG GCACTGTCAC
  Y
  CGGTGCCTGG CAGCAGCAGG TATAGTTTGG TTGGTACCCT GCTCACTCTA CCCACCTCCA
  AACACACAGA AATAGGAACA TATACCCTGA CATCCTTGTG TATCTCTTAT CCCTGCCAGA
  CGTACCCTGC TCCGCACACA TACCAGCCTG AGGCCTTCCA GCCTACATCT TACCTTGGCA
  TGGATATGCC ACCCATCTTA                                            
  
  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	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss49630035	NES12942051	PERLEGEN	MM_PANEL2	f	SNP	C	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	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs30391239					SNP	C	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
ss49630035	NES12942051	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:92761115 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm29481	predicted gene 29481			within coordinates
Gm69848	predicted gene, 69848			within coordinates
Gpc1	glypican 1			Intron
				Noncoding-Transcript-Variant
Rr415863	regulatory region 415863			1738 bp distal
Rr415864	regulatory region 415864			3 bp distal
Rr415865	regulatory region 415865			784 bp proximal
Rr415866	regulatory region 415866			998 bp proximal
Tssr8124	transcription start site region 8124			1886 bp downstream
Tssr8125	transcription start site region 8125			1753 bp downstream
Tssr8126	transcription start site region 8126			1667 bp downstream
Tssr8127	transcription start site region 8127			1644 bp downstream
Tssr8128	transcription start site region 8128			1604 bp downstream
Tssr8129	transcription start site region 8129			1579 bp downstream
Tssr8130	transcription start site region 8130			1518 bp downstream