rs29785981 SNP Detail

Summary

• ID
  rs29785981
• Variation Type
  SNP
• Alleles
  C/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
  Chr13:23804707 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAAATTCCGG GCTAACTTGG
  CCTATACTTC TTGATCACAT GTCCAACAGA TTGAGAAAAA ACAAACAAAC AAACAAACAA
  ACAAACAAAA ACCAAAAAAC CGCATAGTTT TAAGTTTAAG GATACTTGAA ACAACAACAA
  CTCATTTGTT GAAAGAATGC CTGGCTCTTT AAAGTCCTTG AAATCATTCG TGCAAATGCG
  Y
  ACTTGGTTTG TTTTCTTGGT AACAGGCTTG GTGCTCTGCC AGCTTCCTGG GCAATGCAGG
  AGAATGGCAG TCTGGATCAA CTGAGATATG ACGGTTACTC GCTTTTTGTA ATGCGGCACG
  ATGCAGGCAA TGTGCTTTAA AATGTAATTG ATGCCCATGG CCTTGGATAA GATGCTCATG
  TTGGGGCTCA CCTGCTTCAG                                            
  
  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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss47381731	NES11354408	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	T	C	T	C	C	T		T	T	C	T		C
ss324290401	CHEV_13_23712593	CHEVERUD	SCREENING_POP	f	SNP											C					T
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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs29785981					SNP	C	C	C	C	T	C	T	C	C	T	C	T	T	C	T	T	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
ss47381731	NES11354408	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr13:23804707 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi5367	CpG island 5367			558 bp proximal
Cpgi5368	CpG island 5368			1309 bp proximal
Gm11398	predicted gene 11398			6 bp downstream
H1f4	H1.4 linker histone, cluster member			mRNA-UTR
H2bc6	H2B clustered histone 6			Intron
				Noncoding-Transcript-Variant
Rr403657	regulatory region 403657			345 bp upstream
Rr475906	regulatory region 475906			within coordinates
Rr475907	regulatory region 475907			360 bp proximal
Rr475908	regulatory region 475908			1437 bp proximal
Rr475909	regulatory region 475909			1824 bp proximal
Tssr118843	transcription start site region 118843			1127 bp upstream
Tssr118844	transcription start site region 118844			1271 bp upstream
Tssr121728	transcription start site region 121728			366 bp downstream
Tssr121729	transcription start site region 121729			1165 bp downstream
Tssr121730	transcription start site region 121730			1213 bp downstream
Tssr121731	transcription start site region 121731			1266 bp downstream
Tssr121732	transcription start site region 121732			1293 bp downstream
Tssr121733	transcription start site region 121733			1824 bp downstream