rs49715240 SNP Detail

Summary

• ID
  rs49715240
• 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
  Chr5:143804226 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGCTTCTTGT TTTTCTTCGC
  TGAGTGTAAT CTTTGTTCAC TGCTAGAATG AGATTAGATA AGTAAAGATT AGATAAGTAA
  TGATTTCTTT TAGCGAGGTA GTACACGAAC GCTCCAGTTT TCTTGAGGCT TTTGATACAT
  GTAAATCAAA TTGTGTAACG TAAGGCGCGT CGTCTTCAAA ACATCGATTC TTATGTAGGT
  Y
  AACGTTCTGG TATTTTACAG AAAGTGCAGT TGGTTGGTAC CAGTTGCTTG AGCCGTTTTA
  AAACTGAAAT TGTGCTCTCG ATAGTGAATA CACCGAGTCG TGGTGCACTC TTGTAACCCA
  GACGTATGGA AAGTGGAGGC AGGAGGATCG GGACTTGAAG GGCAAGCCTG AGCTTCATGT
  TGAGTTCCAG GGCAGTTTGA                                            
  
  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	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60851691	NES16001411	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	C	T	T	C	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs49715240					SNP	T	T	T	T	T	T	T	T	C	T	T	C	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
ss60851691	NES16001411	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:143804226 () rs orientation: forward

Symbol	Name	Function Class
Cpgi16998	CpG island 16998	159 bp distal
Eif2ak1	eukaryotic translation initiation factor 2 alpha kinase 1	within coordinates
Rr399488	regulatory region 399488	1082 bp downstream
Rr399489	regulatory region 399489	612 bp downstream
Rr624298	regulatory region 624298	1262 bp distal
Rr624299	regulatory region 624299	673 bp distal
Rr624300	regulatory region 624300	within coordinates
Rr624301	regulatory region 624301	312 bp distal
Rr624302	regulatory region 624302	739 bp proximal
Tssr49676	transcription start site region 49676	653 bp downstream
Tssr49677	transcription start site region 49677	628 bp downstream
Tssr49678	transcription start site region 49678	606 bp downstream