rs29612680 SNP Detail

Summary

• ID
  rs29612680
• 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
  Chr6:29537257 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

             TTCCCCTCAT CCTTATGACA AGGATTTCTC CAGGCACCCT CCTTCAGAGT
  Y
  TGAGATGCTG GGACAGAAAG TAGAATTTAA TATATTTTTG GATTAATAAA           
  
  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	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
ss47863860	NES11697006	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	T	C	C	C	T	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	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
rs29612680					SNP	C	C	C	C	C	T	C	C	C	T	C	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
ss47863860	NES11697006	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:29537257 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Irf5	interferon regulatory factor 5			Intron
				mRNA-UTR
Rr627591	regulatory region 627591			139 bp distal
Rr627592	regulatory region 627592			269 bp distal
Tssr55278	transcription start site region 55278			1875 bp downstream
Tssr55279	transcription start site region 55279			1194 bp downstream
Tssr55280	transcription start site region 55280			182 bp downstream