rs27590038 SNP Detail

Summary

• ID
  rs27590038
• Variation Type
  SNP
• Alleles
  G/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
  Chr4:130544865 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGAAAGGCCG TGGGATGTCC
  TCATCAGGGA TGCCCTTTTT GGTCCCATCT GGAGCAGGTG ACCCTTTGGG TCCATCAATA
  GTGGGGAAGC TGAGGTTGAG GTAGGGCTAC AATGGGCTTC AGGGGCCTGG GATTGGGTTG
  CTGGCTCTGT CTTTAGTCGA CTGTGGGCCA GGCAGGGTGA CAGTAGATGT AGCAACTCCA
  K
  CAGGGCCTTG TGACCAGGCA GCTGAATGAC TTCTGACCCC CTTGCCACTC CCATATTCCT
  ATCTACTGAG GAGTTAACCT TCCTCCCAAA GGCTCTGGGA GGTGGGCACA GGCAGTCAGT
  GTGGTCATGA AGCTGCTAAC TGAGGGAGCG CGCTGAGATG GACCCAGCCT GGGGATGGAT
  GTGTGACCAC TGTTCCAGGC                                            
  
  K = G/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	SM/J	WSB/EiJ
ss37753363	NES09165327	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G	T	G	G	T		T	G	G		G
ss321318833	CHEV_4_130373469	CHEVERUD	SCREENING_POP	f	SNP											G				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	SM/J	WSB/EiJ
rs27590038					SNP	G	G	G	G	G	G	T	G	G	T	G	T	G	G	T	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
ss37753363	NES09165327	PERLEGEN	MM_PANEL	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:130544865 () rs orientation: forward

Symbol	Name	Function Class
Sdc3	syndecan 3	within coordinates
Tssr39263	transcription start site region 39263	701 bp downstream
Tssr39264	transcription start site region 39264	643 bp downstream
Tssr39265	transcription start site region 39265	1037 bp upstream
Tssr39266	transcription start site region 39266	1059 bp upstream
Tssr39267	transcription start site region 39267	1077 bp upstream
Tssr39268	transcription start site region 39268	1101 bp upstream
Tssr39269	transcription start site region 39269	1148 bp upstream
Tssr39270	transcription start site region 39270	1173 bp upstream
Tssr39271	transcription start site region 39271	1212 bp upstream
Tssr39272	transcription start site region 39272	1234 bp upstream
Tssr39273	transcription start site region 39273	1294 bp upstream
Tssr39274	transcription start site region 39274	1336 bp upstream
Tssr39275	transcription start site region 39275	1352 bp upstream
Tssr39276	transcription start site region 39276	1388 bp upstream
Tssr39277	transcription start site region 39277	1404 bp upstream
Tssr39278	transcription start site region 39278	1417 bp upstream
Tssr43599	transcription start site region 43599	1135 bp downstream
Tssr43600	transcription start site region 43600	1158 bp downstream
Tssr43601	transcription start site region 43601	1215 bp downstream