rs27435079 SNP Detail

Summary

• ID
  rs27435079
• 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
  Chr2:126775354 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTTCAGTTTC CTTTCTGGCC
  TCTGCCACGT AGCCTCGGGG CGATCTTCGT AAATACGGAA CCCAGACGAG GCTCCTCTCC
  ACACTTGGCA GCACAAATCA AAACTCTTCC TCTGCTGCTA AGTTTACGTC ACCTCACCCT
  GTTTTCTCTG TCCTTGGTTT CTCTACTTTC CCACCCGTTA AGATCCACAG ACCCTCCAGG
  Y
  GGGCAGTCTC TGGGGAATAC ACTCTTGGTG TTCCCTTATC ACTTACTTAA CACTTCCTCC
  CTAAAGAGGG TTTCCTAGTA CACTTCATCT TAAGTACCCC TTAATTCACT TTCATGCTAT
  GATTTATTTG TAACCTTCAT AGCTTTTTTT TTCTTTTTGT TATTTATTTA TTTATTTATT
  TATTGCTGTT GTTGTTCTTG                                            
  
  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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss37630920	NES08999238	PERLEGEN	MM_PANEL2	f	SNP	C	T	C	T	C	C	C	C		C	C	C	C		T
ss320498575	CHEV_2_126759170	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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs27435079					SNP	C	T	C	T	C	C	C	C	C	C	C	C	C	T	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
ss37630920	NES08999238	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:126775354 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi12210	CpG island 12210			30 bp distal
Gm75308	predicted gene, 75308			within coordinates
Rr564422	regulatory region 564422			347 bp distal
Rr564423	regulatory region 564423			358 bp distal
Rr564424	regulatory region 564424			210 bp distal
Rr564425	regulatory region 564425			within coordinates
Sppl2a	signal peptide peptidase like 2A			mRNA-UTR
				Noncoding-Transcript-Variant
Tssr26084	transcription start site region 26084			1528 bp upstream
Tssr26085	transcription start site region 26085			344 bp upstream
Tssr26086	transcription start site region 26086			301 bp upstream
Tssr26087	transcription start site region 26087			270 bp upstream
Tssr26088	transcription start site region 26088			207 bp upstream
Tssr26089	transcription start site region 26089			193 bp upstream
Tssr26090	transcription start site region 26090			433 bp downstream