rs30844007 SNP Detail

Summary

• ID
  rs30844007
• Variation Type
  SNP
• Alleles
  A/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
  Chr3:90520619 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        GCTGTCGACC GTGCGGTGAG CTCTCGCTGG GGGGTCCCTC
  TAGGGTCTTT CTGCTCCTGG GCAAGGGGTT AAGCCACTTC CTTCCCCCGT CAGCCTCTGC
  W
  GGCTCAGTGG GTGGAATGCA TTGGGATCCA AGTTTTCGGA GCCCAGGGAG GCAGGGAGAG
  CCATGATTAG GTGGGTTGTA TCAGGCAAAC CCAGAGGCT                       
  
  W = A/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	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	SM/J
ss45471318	mCV24984929	ABI	CRAMUS_MOUSE	f	SNP	A				A		T
ss60424272	NES15923476	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A		A	T	A		T	A	A
ss135477193	ENSMUSSNP7199610	ENSEMBL	ENSEMBL_Sanger	f	SNP	A						T
ss320838151	CHEV_3_90417234	CHEVERUD	SCREENING_POP	f	SNP									A				T
SNP Consensus Information
SNP					Consensus Type	A/J	AKR/J	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	SM/J
rs30844007					SNP	A	A	A	A	A	A	T	A	A	T	A	A	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
ss60424272	NES15923476	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:90520619 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13468	CpG island 13468			within coordinates
Gm57853	predicted gene, 57853			Intron
				Noncoding-Transcript-Variant
Rr580416	regulatory region 580416			929 bp distal
Rr580417	regulatory region 580417			within coordinates
Rr580418	regulatory region 580418			503 bp distal
S100a5	S100 calcium binding protein A5			1532 bp downstream
S100a6	S100 calcium binding protein A6 (calcyclin)			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Tssr30242	transcription start site region 30242			1016 bp downstream
Tssr30243	transcription start site region 30243			447 bp downstream
Tssr30244	transcription start site region 30244			431 bp downstream
Tssr30245	transcription start site region 30245			333 bp downstream
Tssr30246	transcription start site region 30246			155 bp downstream
Tssr30247	transcription start site region 30247			120 bp downstream
Tssr30248	transcription start site region 30248			20 bp downstream
Tssr30249	transcription start site region 30249			207 bp upstream
Tssr30250	transcription start site region 30250			416 bp upstream
Tssr30251	transcription start site region 30251			463 bp upstream
Tssr30252	transcription start site region 30252			1034 bp upstream
Tssr30253	transcription start site region 30253			1058 bp upstream
Tssr34246	transcription start site region 34246			1099 bp downstream