Variant report

Variant	rs10140410
Chromosome Location	chr14:104062366-104062367
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:104056281..104057998-chr14:104062003..104064043,2	K562	blood:

Extended variants
information (count: 38 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10134399	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10143293	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10149249	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11621777	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11624505	0.80[EUR][1000 genomes]
rs11626658	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2274268	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2274269	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28513222	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28514618	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28660416	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28744517	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55864158	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56017123	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs57447494	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs58133129	0.80[EUR][1000 genomes]
rs59281218	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs60802358	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61996716	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61996717	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61996721	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs68087451	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7142883	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7154587	0.89[EUR][1000 genomes]
rs7154948	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7693	0.90[EUR][1000 genomes]
rs8003090	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs8018979	0.80[EUR][1000 genomes]
rs942863	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3332028	chr14:103581471-104328811	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
2	nsv832883	chr14:103927687-104120953	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	nsv902300	chr14:103967504-104205811	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
4	nsv902305	chr14:103979953-104073551	Strong transcription Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
5	nsv566022	chr14:104007555-104092789	Genic enhancers Flanking Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv1052010	chr14:104061472-104216267	Weak transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
7	nsv542201	chr14:104061472-104216267	Weak transcription Enhancers Genic enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
8	nsv456435	chr14:104061646-104198251	Weak transcription Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
9	nsv566023	chr14:104061646-104198251	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10140410	APOPT1	cis	Muscle Skeletal	GTEx
rs10140410	BAG5	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:104030800-104073200	Weak transcription	Small Intestine	intestine
2	chr14:104041000-104063200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr14:104045600-104067200	Weak transcription	Primary B cells from cord blood	blood
4	chr14:104045800-104064200	Weak transcription	Hela-S3	cervix
5	chr14:104055800-104067000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr14:104055800-104073000	Weak transcription	Rectal Smooth Muscle	rectum
7	chr14:104056800-104064000	Weak transcription	A549	lung
8	chr14:104057000-104070800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr14:104057600-104063600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr14:104057600-104063800	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr14:104057600-104064000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr14:104057600-104064200	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr14:104057600-104064200	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr14:104057600-104064400	Weak transcription	Stomach Smooth Muscle	stomach
15	chr14:104057600-104073400	Weak transcription	Primary T cells from cord blood	blood
16	chr14:104057800-104062400	Weak transcription	Aorta	Aorta
17	chr14:104057800-104063800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr14:104057800-104064200	Weak transcription	Primary monocytes fromperipheralblood	blood
19	chr14:104057800-104064200	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr14:104057800-104064200	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr14:104057800-104064200	Weak transcription	Osteobl	bone
22	chr14:104057800-104073200	Weak transcription	Fetal Intestine Large	intestine
23	chr14:104057800-104073200	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr14:104057800-104073400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr14:104057800-104073400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr14:104058000-104073400	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr14:104059600-104062400	Enhancers	Cortex derived primary cultured neurospheres	brain
28	chr14:104059600-104062800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr14:104059800-104062600	Enhancers	NH-A	brain
30	chr14:104060000-104065000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr14:104060200-104062800	Enhancers	Fetal Muscle Trunk	muscle
32	chr14:104060200-104090200	Weak transcription	Pancreas	Pancrea
33	chr14:104060400-104062400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr14:104060400-104062400	Enhancers	Fetal Brain Male	brain
35	chr14:104060400-104062600	Enhancers	Placenta	Placenta
36	chr14:104060400-104062800	Enhancers	Fetal Brain Female	brain
37	chr14:104060400-104065200	Strong transcription	Fetal Intestine Small	intestine
38	chr14:104060400-104071200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr14:104060800-104064200	Weak transcription	Spleen	Spleen
40	chr14:104060800-104073400	Weak transcription	Lung	lung
41	chr14:104061000-104062800	Enhancers	Fetal Muscle Leg	muscle
42	chr14:104061000-104063800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr14:104061000-104064200	Weak transcription	NHDF-Ad	bronchial
44	chr14:104061000-104069200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr14:104061600-104063200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr14:104061800-104062400	Enhancers	Gastric	stomach
47	chr14:104061800-104063800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr14:104061800-104063800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr14:104061800-104064000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr14:104061800-104064000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links