rs239897472 SNP Detail

Summary

• ID
  rs239897472
• Variation Type
  SNP
• Alleles
  C/G

• 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
  Chr6:49024101 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCTCACCATG ACATTAAATG
  AGTCCTAAGG GAAGAGTATG CATTTCATGT GCAAATCGTT TAAACCGAAT AGCCTTCATC
  TATAAATTAG GAACTGGCTG GATTGCCCCT CTGTGGAGCT CTTTCACTTT AAGCAGCTGT
  GAGCAGTTGT TACCTGTATG CAAGCAGAAA GTTGCTTCAT CGGGTTTTGC ATCAAGGCCG
  S
  CACCAGCTCC CTTTCAGGAG CGTCCAGCCT GTTCTCTTCG CAGAGCAACC TTTAACCTTT
  CAGAAACAAC TCTGCCTAAA GATCATGTGA TGTTACCAGT AACTCAAAAT GTCCATCTTT
  TCACAGGCCA GTATTTCCAA AAACTGGGTC GGTGTTCAGC ACGGGTTTCT ATAAACACAG
  TCAACTTGAC AGCTGGCCCT                                            
  
  S = C/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	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
ss368235217	MGP_WTSI_6_48997166	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G
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
rs239897472					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G

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
ss368235217	MGP_WTSI_6_48997166	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:49024101 () rs orientation: forward

Symbol	Name	Function Class
D6Dcr8	DNA Segment, Chr 6, Derry C. Roopenian 8	717 bp distal
D6Mit142	DNA segment, Chr 6, Massachusetts Institute of Technology 142	729 bp distal
Gm56981	predicted gene, 56981	within coordinates
Gpnmb	glycoprotein (transmembrane) nmb	within coordinates
Tssr56319	transcription start site region 56319	1850 bp downstream
Tssr56320	transcription start site region 56320	1810 bp downstream
Tssr56321	transcription start site region 56321	1796 bp downstream
Tssr56322	transcription start site region 56322	1778 bp downstream
Tssr56323	transcription start site region 56323	1742 bp downstream
Tssr56324	transcription start site region 56324	1712 bp downstream
Tssr56325	transcription start site region 56325	1556 bp downstream
Tssr56326	transcription start site region 56326	1541 bp downstream
Tssr56327	transcription start site region 56327	1487 bp downstream
Tssr56328	transcription start site region 56328	1409 bp downstream
Tssr56329	transcription start site region 56329	1333 bp downstream
Tssr56330	transcription start site region 56330	1162 bp downstream
Tssr56331	transcription start site region 56331	1117 bp downstream
Tssr56332	transcription start site region 56332	1044 bp downstream
Tssr56333	transcription start site region 56333	1006 bp downstream
Tssr56334	transcription start site region 56334	996 bp downstream
Tssr56335	transcription start site region 56335	976 bp downstream
Tssr56336	transcription start site region 56336	949 bp downstream
Tssr56337	transcription start site region 56337	926 bp downstream
Tssr56338	transcription start site region 56338	910 bp downstream
Tssr56339	transcription start site region 56339	896 bp downstream
Tssr56340	transcription start site region 56340	706 bp downstream
Tssr56341	transcription start site region 56341	446 bp downstream
Tssr56342	transcription start site region 56342	414 bp downstream
Tssr56343	transcription start site region 56343	125 bp upstream
Tssr56344	transcription start site region 56344	139 bp upstream
Tssr56345	transcription start site region 56345	157 bp upstream
Tssr56346	transcription start site region 56346	194 bp upstream
Tssr56347	transcription start site region 56347	232 bp upstream
Tssr56348	transcription start site region 56348	258 bp upstream
Tssr56349	transcription start site region 56349	581 bp upstream
Tssr56350	transcription start site region 56350	608 bp upstream
Tssr56351	transcription start site region 56351	638 bp upstream
Tssr56352	transcription start site region 56352	651 bp upstream
Tssr56353	transcription start site region 56353	720 bp upstream
Tssr56354	transcription start site region 56354	735 bp upstream
Tssr56355	transcription start site region 56355	760 bp upstream
Tssr56356	transcription start site region 56356	778 bp upstream
Tssr56357	transcription start site region 56357	790 bp upstream
Tssr56358	transcription start site region 56358	808 bp upstream
Tssr56359	transcription start site region 56359	823 bp upstream
Tssr56360	transcription start site region 56360	860 bp upstream
Tssr60846	transcription start site region 60846	1775 bp upstream
Tssr60847	transcription start site region 60847	1692 bp upstream
Tssr60848	transcription start site region 60848	759 bp upstream
Tssr60849	transcription start site region 60849	162 bp downstream
Tssr60850	transcription start site region 60850	217 bp downstream
Tssr60851	transcription start site region 60851	687 bp downstream
Tssr60852	transcription start site region 60852	730 bp downstream
Tssr60853	transcription start site region 60853	740 bp downstream
Tssr60854	transcription start site region 60854	759 bp downstream
Tssr60855	transcription start site region 60855	792 bp downstream
Tssr60856	transcription start site region 60856	830 bp downstream
Tssr60857	transcription start site region 60857	859 bp downstream