Variant report

Variant	rs2440974
Chromosome Location	chr15:57576459-57576460
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	chr15:57575333..57577796-chr15:57582092..57585036,2	K562	blood:

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs11071310	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12324235	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17239459	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17820018	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17820095	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1867638	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1870870	0.80[ASN][1000 genomes]
rs2248620	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2290939	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2431032	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2440972	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2441924	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2591062	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2591066	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2593217	0.84[EUR][1000 genomes]
rs2593221	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2593223	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2593233	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2593234	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2593236	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2615228	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2703599	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2703600	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2733304	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2733309	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2733318	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2733320	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2733329	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2733330	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2921430	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3794617	0.80[EUR][1000 genomes]
rs4378569	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4774920	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56151428	0.80[EUR][1000 genomes]
rs6493909	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7167268	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7180513	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7182038	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7182188	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72731974	0.80[EUR][1000 genomes]
rs72731986	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs734033	0.81[EUR][1000 genomes]
rs8024830	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8027348	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8037987	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8042322	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8043103	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs935328	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv833021	chr15:57495413-57751366	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv526342	chr15:57565859-57597280	Strong transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57522800-57585000	Strong transcription	Fetal Thymus	thymus
2	chr15:57537800-57598200	Weak transcription	Colonic Mucosa	Colon
3	chr15:57546000-57580600	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr15:57548200-57578000	Weak transcription	Fetal Heart	heart
5	chr15:57552200-57588600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr15:57552400-57578600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr15:57553200-57585000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr15:57556200-57580600	Weak transcription	Stomach Mucosa	stomach
9	chr15:57557000-57584600	Weak transcription	Colon Smooth Muscle	Colon
10	chr15:57557600-57578000	Weak transcription	Pancreas	Pancrea
11	chr15:57557600-57588600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr15:57562600-57578000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr15:57562600-57584200	Strong transcription	Fetal Muscle Trunk	muscle
14	chr15:57562600-57584600	Strong transcription	Fetal Muscle Leg	muscle
15	chr15:57564000-57582400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr15:57564000-57583600	Strong transcription	Dnd41	blood
17	chr15:57564800-57584600	Strong transcription	Cortex derived primary cultured neurospheres	brain
18	chr15:57565000-57583400	Strong transcription	Thymus	Thymus
19	chr15:57565600-57584600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr15:57565800-57578000	Weak transcription	Right Ventricle	heart
21	chr15:57566000-57577800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr15:57566000-57577800	Weak transcription	Brain Substantia Nigra	brain
23	chr15:57566000-57579000	Weak transcription	Brain Germinal Matrix	brain
24	chr15:57566000-57584400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr15:57566000-57591600	Weak transcription	Esophagus	oesophagus
26	chr15:57566200-57578400	Weak transcription	Spleen	Spleen
27	chr15:57566400-57577800	Weak transcription	Small Intestine	intestine
28	chr15:57566400-57578000	Weak transcription	Ovary	ovary
29	chr15:57567000-57579000	Weak transcription	Rectal Smooth Muscle	rectum
30	chr15:57567400-57577600	Weak transcription	A549	lung
31	chr15:57567800-57578600	Weak transcription	NHEK	skin
32	chr15:57568000-57578200	Weak transcription	Brain Angular Gyrus	brain
33	chr15:57568000-57578400	Weak transcription	H9 Cell Line	embryonic stem cell
34	chr15:57568000-57582600	Weak transcription	Aorta	Aorta
35	chr15:57568000-57588400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr15:57568000-57590600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr15:57568200-57577800	Weak transcription	Gastric	stomach
38	chr15:57568200-57577800	Weak transcription	HMEC	breast
39	chr15:57568200-57578000	Weak transcription	Lung	lung
40	chr15:57568200-57578400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr15:57568200-57591600	Weak transcription	Psoas Muscle	Psoas
42	chr15:57568600-57583800	Strong transcription	Fetal Intestine Large	intestine
43	chr15:57570000-57576800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr15:57570200-57577800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr15:57571200-57576600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr15:57571200-57580000	Strong transcription	Adipose Nuclei	Adipose
47	chr15:57571200-57580800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
48	chr15:57571400-57576800	Strong transcription	Primary T cells fromperipheralblood	blood
49	chr15:57571400-57582200	Strong transcription	HSMM	muscle
50	chr15:57571400-57583600	Strong transcription	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links