rs220236509 SNP Detail

Summary

• ID
  rs220236509
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  137
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr1:75118573 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGTGTTCTCA GCCCGTGCCG
  CGTTCGCTAG GCGTTTATAA GCTGCGGGAG TGAGTGTCAC CGACGAGTCT GCGCGCCCGG
  CAGGAAGTGC CTCCTGCCTT GCCCAACCTG AGAGCTCCGG GTCTCCGGAG CTATGAGCAC
  CGGGGGCAAT TGTAATACGG TTCCCAGGGG ACCGCGACAC ACCAAGGGTG AACGCGCTGA
  Y
  CAGGCTTTGT AGTCGTGGTA CAGATAGTAA CGAGCCTAAC ACAAAGGCAA CGCGGCGAGT
  TGTTTCCTGG GTTTTAGGGA AGACGCACTC AATCAGCAAT GCCCAGGAAA GATGAACAAG
  AAACTTACCG TAGGTGGGAG AACTGTGAAC AAGGTGGGAG GGAATCTGTT GAATCTTTAT
  GCCCCTTAGA AGTTTGAAAC                                            
  
  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	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss350135773	MGP_WTSI_1_75138503	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	T	C	C	C	C	C	T	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs220236509					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	T	C	C	C	C	C	T	C	C	C	C	C	C	T	C	C	C	C	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
ss350135773	MGP_WTSI_1_75138503	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:75118573 () rs orientation: forward

Symbol	Name	Function Class
Cnppd1	cyclin Pas1/PHO80 domain containing 1	within coordinates
Cpgi410	CpG island 410	within coordinates
Cpgi411	CpG island 411	306 bp proximal
Gm57175	predicted gene, 57175	within coordinates
Retreg2	reticulophagy regulator family member 2	859 bp upstream
Tssr7484	transcription start site region 7484	224 bp downstream
Tssr7485	transcription start site region 7485	131 bp downstream
Tssr7486	transcription start site region 7486	504 bp upstream
Tssr7487	transcription start site region 7487	573 bp upstream
Tssr7488	transcription start site region 7488	789 bp upstream
Tssr7489	transcription start site region 7489	833 bp upstream
Tssr7490	transcription start site region 7490	846 bp upstream
Tssr7491	transcription start site region 7491	884 bp upstream
Tssr7492	transcription start site region 7492	899 bp upstream
Tssr7493	transcription start site region 7493	1314 bp upstream
Tssr12350	transcription start site region 12350	414 bp upstream
Tssr12351	transcription start site region 12351	399 bp upstream
Tssr12352	transcription start site region 12352	385 bp upstream
Tssr12353	transcription start site region 12353	323 bp upstream
Tssr12354	transcription start site region 12354	281 bp upstream
Tssr12355	transcription start site region 12355	186 bp upstream
Tssr12356	transcription start site region 12356	126 bp upstream
Tssr12357	transcription start site region 12357	395 bp downstream
Tssr12358	transcription start site region 12358	431 bp downstream
Tssr12359	transcription start site region 12359	705 bp downstream