Variant report

Variant	rs2505740
Chromosome Location	chr10:44821097-44821098
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:44810814..44813598-chr10:44820060..44822931,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1111259	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11239000	1.00[ASN][1000 genomes]
rs1144483	0.94[CEU][hapmap];0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs1144484	0.83[ASW][hapmap];0.94[CEU][hapmap];0.89[LWK][hapmap];0.85[MKK][hapmap];0.91[TSI][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs12240817	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12246602	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1370158	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1436931	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17155986	1.00[CHB][hapmap]
rs1836982	0.89[ASW][hapmap];0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.88[MEX][hapmap];0.85[MKK][hapmap];0.91[TSI][hapmap];0.90[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1898317	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1898318	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1898319	0.89[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2028102	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2118162	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2457481	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2476351	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2505735	0.89[MEX][hapmap];0.97[TSI][hapmap];0.86[EUR][1000 genomes]
rs2505736	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs2505737	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2505738	0.83[EUR][1000 genomes]
rs2505739	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2505743	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs266109	0.82[MEX][hapmap]
rs2862116	1.00[CHB][hapmap]
rs56179443	0.89[ASN][1000 genomes]
rs61856385	0.89[ASN][1000 genomes]
rs72790834	1.00[ASN][1000 genomes]
rs7915618	0.89[ASN][1000 genomes]
rs800310	0.83[TSI][hapmap]
rs977754	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1038511	chr10:44596885-44870030	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2505740	TMEM22	trans	lymphoblastoid	seeQTL

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44807200-44822200	Weak transcription	Left Ventricle	heart
2	chr10:44816600-44821200	Weak transcription	Fetal Heart	heart
3	chr10:44819400-44822400	Enhancers	Rectal Mucosa Donor 31	rectum
4	chr10:44820000-44821200	Enhancers	Fetal Intestine Small	intestine
5	chr10:44820000-44821200	Enhancers	Small Intestine	intestine
6	chr10:44820000-44821400	Enhancers	Fetal Intestine Large	intestine
7	chr10:44820000-44822200	Enhancers	HepG2	liver
8	chr10:44820000-44822400	Enhancers	Stomach Mucosa	stomach
9	chr10:44820000-44823000	Enhancers	Skeletal Muscle Female	skeletal muscle
10	chr10:44820000-44823200	Enhancers	Pancreas	Pancrea
11	chr10:44820200-44821400	Weak transcription	Right Ventricle	heart
12	chr10:44820200-44821800	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr10:44820400-44821800	Weak transcription	Fetal Thymus	thymus
14	chr10:44820600-44821200	Enhancers	Rectal Mucosa Donor 29	rectum
15	chr10:44820600-44822400	Enhancers	Fetal Muscle Leg	muscle
16	chr10:44820600-44822400	Enhancers	Psoas Muscle	Psoas
17	chr10:44820800-44822400	Enhancers	Rectal Smooth Muscle	rectum
18	chr10:44820800-44822400	Enhancers	Right Atrium	heart
19	chr10:44820800-44822400	Enhancers	Skeletal Muscle Male	skeletal muscle
20	chr10:44821000-44822400	Enhancers	Colon Smooth Muscle	Colon

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