rs27000317 SNP Detail

Summary

• ID
  rs27000317
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr11:115079695 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTCGGGTCCT CTGCAGGAGC
  AGCAGGTACT CTTAACTGCT GAGCTGTTTC TCCAGGCCAG TTCTCCTTTT AGACACCTAT
  CAGAGAGCAT CAAGCCAAAT AGTAGTTAAC TTGCTAGTCT CCCATAATAT CTATCTCAGG
  ACTCCCACAG ATGACACACA GTTCTGCCAG TCAGCTGGGC AGTCACCAAC AGCTGTCGCC
  R
  TGGAGTTGTG TTCCTCTCAG TAGTCAGCAG CCTCTTTCTT CCTTCGCTAA ATTCTAAATT
  GCACAACTCT TGTGGTCTTG GATGTTGAAA GAGGTGGTGA ACTGCAGAGT CTCCCAATTG
  CAGTTTGGTA GAGCATGCAA TTATGACAAT TAGAGCGATT GATTCCCCTC TGTCTCGGCT
  CCGTGGCCCC TGCACTCCCC                                            
  
  R = A/G
  

  
  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	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss37248536	NES08521395	PERLEGEN	MM_PANEL2	f	SNP	A	A	G	A	A	A	G	A	A	A	A	A	G	A
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	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27000317					SNP	A	A	G	A	A	A	G	A	A	A	A	A	G	A

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
ss37248536	NES08521395	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:115079695 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi4111	CpG island 4111			902 bp distal
Nat9	N-acetyltransferase 9 (GCN5-related, putative)			1013 bp upstream
Rr403112	regulatory region 403112			1366 bp downstream
Rr459794	regulatory region 459794			1372 bp distal
Rr459795	regulatory region 459795			1036 bp distal
Rr459796	regulatory region 459796			594 bp distal
Rr459797	regulatory region 459797			259 bp distal
Rr459798	regulatory region 459798			within coordinates
Rr459799	regulatory region 459799			464 bp proximal
Tmem104	transmembrane protein 104			Intron
				Noncoding-Transcript-Variant
Tssr3728	transcription start site region 3728			1298 bp downstream
Tssr3729	transcription start site region 3729			189 bp upstream
Tssr3730	transcription start site region 3730			708 bp upstream
Tssr105849	transcription start site region 105849			1307 bp downstream
Tssr111731	transcription start site region 111731			1585 bp upstream
Tssr111732	transcription start site region 111732			1551 bp upstream
Tssr111733	transcription start site region 111733			1510 bp upstream
Tssr111734	transcription start site region 111734			1033 bp upstream
Tssr111735	transcription start site region 111735			1001 bp upstream
Tssr111736	transcription start site region 111736			95 bp upstream