rs39340250 SNP Detail

Summary

• ID
  rs39340250
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  126
• Last Updated in dbSNP Build
  126
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr10:77443854 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        TTGATGGAGC CTCTCTCCTG CCGAACCATT TCTCAGACTA
  GAAGGAGCCA TGCTCCTACC TAAAGCTGTT AGGACCCAGT GCAGGGCAGG TTGCTTTCTG
  Y
  ACCCTGCACC CGAGCTTCCT GACACTAGTC TACCTCTCTC TCCGGGAATA AAAATGTTGC
  TGAGGACACC CCTGGGAAGC AGGGTGCTTC CATGGAGCAT                      
  
  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
ss50884519	NES14160410	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	T	C	C	C	C	C	C	C	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
rs39340250					SNP	C	C	C	C	C	C	T	C	C	C	C	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
ss50884519	NES14160410	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr10:77443854 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi1760	CpG island 1760			948 bp distal
Gm49325	predicted gene, 49325			Intron
Rr402005	regulatory region 402005			1303 bp downstream
Rr434546	regulatory region 434546			1439 bp distal
Rr434547	regulatory region 434547			192 bp distal
Sumo3	small ubiquitin-like modifier 3			Intron
				Noncoding-Transcript-Variant
Tssr94265	transcription start site region 94265			1953 bp downstream
Tssr94266	transcription start site region 94266			1780 bp downstream
Tssr94267	transcription start site region 94267			1765 bp downstream
Tssr94268	transcription start site region 94268			1367 bp downstream
Tssr94269	transcription start site region 94269			1340 bp downstream
Tssr94270	transcription start site region 94270			1302 bp downstream
Tssr98239	transcription start site region 98239			901 bp upstream