rs29788658 SNP Detail

Summary

• ID
  rs29788658
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr13:23806717 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCAGAGGGAC TGGCCAGGAC
  TCGGGCCGCG GCGCTGCGCC CGCCCGTTTA TATAGGGCGG AGCTGCGCCG TGATTGGTGC
  GCTGTCCAGC CCGCCTCGCT GGCAGCCGCG GAGTGTCCTC TCAGATGCGG AGTTGTGTTT
  GTTACACCTC AAAAAAAGCC AAAAATGTCA AAATTCCCTA CATCGAATTG CCCGATTTTT
  W
  AAAAATAATG TTCCCCGAAG TCTCGGGCTT CATGCACATC TCAAAAAGTG AGCAAAGCAT
  TAAGCCTTCT GCCAAAAACT TGCAATATTT CCTGCGGTGT TCAGCAAATT TCAACTCAGA
  GAAACAAAAC TTTCTATTTT CTTCGTAAAT TATAAACTGA TCTTGGACTG TACAGTTTTC
  TGACCCATCA AAGACGATTC                                            
  
  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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	SM/J	WSB/EiJ
ss47381758	NES11354417	PERLEGEN	MM_PANEL2	f	SNP	A	A	A	A	T	A	A	A	T		T	T	A		A
ss324290407	CHEV_13_23714603	CHEVERUD	SCREENING_POP	f	SNP										A				T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	SM/J	WSB/EiJ
rs29788658					SNP	A	A	A	A	T	A	A	A	T	A	T	T	A	T	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
ss47381758	NES11354417	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:23806717 () rs orientation: forward

Symbol	Name	Function Class
Cpgi5367	CpG island 5367	1276 bp distal
Cpgi5368	CpG island 5368	within coordinates
Gm11398	predicted gene 11398	1685 bp upstream
H1f4	H1.4 linker histone, cluster member	176 bp upstream
H2bc6	H2B clustered histone 6	1626 bp upstream
Rr403657	regulatory region 403657	1364 bp downstream
Rr475906	regulatory region 475906	1651 bp distal
Rr475907	regulatory region 475907	1120 bp distal
Rr475908	regulatory region 475908	552 bp distal
Rr475909	regulatory region 475909	within coordinates
Tssr118843	transcription start site region 118843	862 bp downstream
Tssr118844	transcription start site region 118844	683 bp downstream
Tssr121728	transcription start site region 121728	1619 bp upstream
Tssr121729	transcription start site region 121729	803 bp upstream
Tssr121730	transcription start site region 121730	745 bp upstream
Tssr121731	transcription start site region 121731	731 bp upstream
Tssr121732	transcription start site region 121732	628 bp upstream
Tssr121733	transcription start site region 121733	171 bp upstream