Variant report

Variant	rs17875332
Chromosome Location	chr10:94352086-94352087
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:48)
CpG islands
(count:0)
Chromatin interactive
region (count:23)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:48 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:94350480-94353543	Raji	blood:	n/a	n/a
2	POLR2A	chr10:94351139-94353402	GM19193	blood:	n/a	n/a
3	POLR2A	chr10:94352013-94353315	GM12892	blood:	n/a	n/a
4	POLR2A	chr10:94350866-94353483	GM12878	blood:	n/a	n/a
5	POLR2A	chr10:94350532-94353421	GM12878	blood:	n/a	n/a
6	CREB1	chr10:94351245-94352107	ECC-1	luminal epithelium:	n/a	n/a
7	CTCF	chr10:94350007-94352200	A549	lung:	n/a	chr10:94350632-94350645 chr10:94350631-94350652 chr10:94350629-94350647
8	NFIC	chr10:94350815-94352134	GM12878	blood:	n/a	n/a
9	CREB1	chr10:94350947-94352120	HepG2	liver:	n/a	n/a
10	POLR2A	chr10:94351135-94353374	GM18505	blood:	n/a	n/a
11	STAT5A	chr10:94351038-94352197	GM12878	blood:	n/a	n/a
12	POLR2A	chr10:94350096-94354204	GM12891	blood:	n/a	n/a
13	POLR2A	chr10:94350405-94354257	PBDE	blood:	n/a	n/a
14	POLR2A	chr10:94351076-94353287	PANC-1	pancreas:	n/a	n/a
15	POLR2A	chr10:94351056-94353370	ECC-1	luminal epithelium:	n/a	n/a
16	POLR2A	chr10:94350750-94353146	HCT-116	colon:	n/a	n/a
17	POLR2A	chr10:94350433-94353351	K562	blood:	n/a	n/a
18	MAX	chr10:94350351-94352147	A549	lung:	n/a	chr10:94350784-94350793
19	POLR2A	chr10:94350371-94353159	GM12878	blood:	n/a	n/a
20	POLR2A	chr10:94350990-94353283	HUVEC	blood vessel:	n/a	n/a
21	POLR2A	chr10:94351132-94353304	MCF-7	breast:	n/a	n/a
22	MTA3	chr10:94350511-94353491	GM12878	blood:	n/a	n/a
23	POLR2A	chr10:94350449-94352119	HCT-116	colon:	n/a	n/a
24	POLR2A	chr10:94351931-94352269	ProgFib	skin:	n/a	n/a
25	POLR2A	chr10:94350634-94353389	MCF-7	breast:	n/a	n/a
26	POLR2A	chr10:94350338-94352101	HUVEC	blood vessel:	n/a	n/a
27	HEY1	chr10:94350422-94353185	HepG2	liver:	n/a	chr10:94352770-94352785 chr10:94351528-94351543 chr10:94351559-94351574
28	POLR2A	chr10:94351166-94353360	GM12878	blood:	n/a	n/a
29	PML	chr10:94350837-94352125	GM12878	blood:	n/a	n/a
30	SIN3AK20	chr10:94350428-94352112	MCF-7	breast:	n/a	n/a
31	POLR2A	chr10:94350506-94352164	HEK293	kidney:	n/a	n/a
32	POLR2A	chr10:94350440-94353729	MCF10A-Er-Src	breast:	n/a	n/a
33	POLR2A	chr10:94350925-94353336	PANC-1	pancreas:	n/a	n/a
34	POLR2A	chr10:94350591-94353378	GM18951	blood:	n/a	n/a
35	POLR2A	chr10:94350641-94353399	HepG2	liver:	n/a	n/a
36	SMARCB1	chr10:94351249-94353397	Hela-S3	cervix:	n/a	n/a
37	TCF12	chr10:94350922-94353523	A549	lung:	n/a	n/a
38	TBP	chr10:94351218-94352176	K562	blood:	n/a	n/a
39	POLR2A	chr10:94350588-94353382	ECC-1	luminal epithelium:	n/a	n/a
40	HCFC1	chr10:94350266-94352252	Hela-S3	cervix:	n/a	n/a
41	POLR2A	chr10:94351733-94352160	K562	blood:	n/a	n/a
42	POLR2A	chr10:94350558-94353380	GM12892	blood:	n/a	n/a
43	MYBL2	chr10:94350463-94352109	HepG2	liver:	n/a	n/a
44	POLR2A	chr10:94351075-94353374	GM15510	blood:	n/a	n/a
45	POLR2A	chr10:94350407-94353417	GM12878	blood:	n/a	n/a
46	GTF3C2	chr10:94351934-94352957	K562	blood:	n/a	n/a
47	TEAD4	chr10:94351087-94352132	ECC-1	luminal epithelium:	n/a	n/a
48	POLR2A	chr10:94352012-94353466	GM12892	blood:	n/a	n/a

No data

(count:23 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:94351268..94354735-chr10:94355145..94359396,3	K562	blood:
2	chr10:94330286..94336827-chr10:94349891..94354260,15	K562	blood:
3	chr10:94341343..94347435-chr10:94348651..94352489,6	K562	blood:
4	chr10:94329944..94332046-chr10:94350652..94352961,2	MCF-7	breast:
5	chr10:94349845..94352278-chr10:94364574..94366521,2	K562	blood:
6	chr10:94346330..94348622-chr10:94350152..94352850,4	MCF-7	breast:
7	chr10:94350490..94352733-chr10:94357545..94360225,2	MCF-7	breast:
8	chr10:94351725..94353301-chr10:94589609..94592418,2	K562	blood:
9	chr10:94347817..94350094-chr10:94351075..94352910,3	MCF-7	breast:
10	chr10:94327650..94337583-chr10:94349444..94356782,22	K562	blood:
11	chr10:94351156..94354361-chr10:94606648..94609927,3	MCF-7	breast:
12	chr10:94349914..94352600-chr10:94405962..94408732,2	MCF-7	breast:
13	chr10:94349533..94356622-chr10:94447410..94453498,11	K562	blood:
14	chr10:94350021..94352596-chr10:94356873..94358972,3	MCF-7	breast:
15	chr10:94332407..94336018-chr10:94349212..94353201,7	MCF-7	breast:
16	chr10:94350588..94352727-chr10:94492538..94494364,2	K562	blood:
17	chr10:94271122..94273311-chr10:94351140..94352702,2	MCF-7	breast:
18	chr10:94351298..94352921-chr10:94510059..94511770,2	K562	blood:
19	chr10:94351957..94352804-chr15:59664891..59665871,2	Hela-S3	cervix:
20	chr10:94343007..94345343-chr10:94351332..94352887,2	MCF-7	breast:
21	chr10:94349533..94354628-chr10:94448059..94453493,12	K562	blood:
22	chr10:94332262..94336114-chr10:94349834..94354042,11	MCF-7	breast:
23	chr10:94231625..94235383-chr10:94350163..94352674,3	MCF-7	breast:

No data

Variant related genes	Relation type
KIF11	TF binding region
ENSG00000184111	Chromatin interaction
ENSG00000138190	Chromatin interaction
ENSG00000157483	Chromatin interaction
ENSG00000119912	Chromatin interaction
ENSG00000152804	Chromatin interaction
ENSG00000157470	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11187066	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12253177	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12258487	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12262994	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12264361	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12266443	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17875329	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17875344	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17875345	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17875346	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17875347	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2275218	0.81[ASN][1000 genomes]
rs2275220	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2421942	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3737225	0.81[ASN][1000 genomes]
rs57299222	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs74151654	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74151656	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74151657	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74151659	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74151667	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74151672	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046258	chr10:93866969-94466106	Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	esv1792868	chr10:94232247-94409749	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
3	nsv895894	chr10:94249982-94452430	Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Enhancers 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	40 gene(s)	inside rSNPs	diseases
4	nsv895895	chr10:94304132-94372706	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:94350400-94352600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr10:94350400-94353200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
3	chr10:94350600-94352400	Flanking Active TSS	Dnd41	blood
4	chr10:94350600-94352600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
5	chr10:94350600-94353200	Active TSS	Brain Substantia Nigra	brain
6	chr10:94350600-94353200	Active TSS	Rectal Mucosa Donor 29	rectum
7	chr10:94350600-94353600	Active TSS	Right Atrium	heart
8	chr10:94350600-94354400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr10:94350600-94354800	Active TSS	ES-I3 Cell Line	embryonic stem cell
10	chr10:94350600-94355000	Active TSS	HUES64 Cell Line	embryonic stem cell
11	chr10:94350600-94355200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr10:94350600-94355400	Active TSS	GM12878-XiMat	blood
13	chr10:94350600-94355600	Active TSS	HUES6 Cell Line	embryonic stem cell
14	chr10:94350600-94355800	Active TSS	iPS-15b Cell Line	embryonic stem cell
15	chr10:94350800-94352600	Flanking Active TSS	Primary hematopoietic stem cells	blood
16	chr10:94350800-94352600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
17	chr10:94350800-94352600	Flanking Active TSS	Fetal Muscle Leg	muscle
18	chr10:94350800-94352800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr10:94350800-94353000	Active TSS	Duodenum Smooth Muscle	Duodenum
20	chr10:94350800-94353000	Active TSS	Stomach Smooth Muscle	stomach
21	chr10:94350800-94353400	Active TSS	Psoas Muscle	Psoas
22	chr10:94350800-94353800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr10:94350800-94354000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
24	chr10:94350800-94354800	Active TSS	Fetal Brain Female	brain
25	chr10:94350800-94355000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr10:94350800-94355600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr10:94350800-94355800	Active TSS	Thymus	Thymus
28	chr10:94351000-94352400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr10:94351000-94352600	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr10:94351000-94352600	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
31	chr10:94351000-94352600	Flanking Active TSS	HUVEC	blood vessel
32	chr10:94351000-94353000	Active TSS	Right Ventricle	heart
33	chr10:94351000-94353000	Active TSS	Skeletal Muscle Female	skeletal muscle
34	chr10:94351000-94353200	Active TSS	Brain Angular Gyrus	brain
35	chr10:94351000-94353400	Active TSS	Pancreatic Islets	Pancreatic Islet
36	chr10:94351000-94353400	Active TSS	Left Ventricle	heart
37	chr10:94351000-94353600	Active TSS	Brain Anterior Caudate	brain
38	chr10:94351000-94354200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr10:94351000-94354200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
40	chr10:94351000-94354800	Active TSS	H1 Cell Line	embryonic stem cell
41	chr10:94351000-94354800	Active TSS	HSMM	muscle
42	chr10:94351000-94355000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr10:94351000-94355200	Active TSS	H9 Cell Line	embryonic stem cell
44	chr10:94351000-94355600	Active TSS	iPS-20b Cell Line	embryonic stem cell
45	chr10:94351000-94356600	Active TSS	K562	blood
46	chr10:94351200-94352200	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr10:94351200-94352200	Active TSS	Liver	Liver
48	chr10:94351200-94352400	Active TSS	Adipose Nuclei	Adipose
49	chr10:94351200-94353000	Active TSS	Brain Inferior Temporal Lobe	brain
50	chr10:94351200-94353000	Active TSS	Colonic Mucosa	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links