Variant report

Variant	esv3491377
Chromosome Location	chr10:99034084-99037694
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:7)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:7 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr10:99037678-99039072	A549	lung:	n/a	chr10:99038419-99038437 chr10:99038420-99038436 chr10:99038424-99038432 chr10:99038421-99038442
2	CTCF	chr10:99037420-99037570	HPF	lung:	n/a	n/a
3	CTCF	chr10:99037660-99037810	GM12873	blood:	n/a	n/a
4	CTCF	chr10:99034720-99034870	GM12864	blood:	n/a	n/a
5	CTCF	chr10:99034720-99034870	GM12869	blood:	n/a	n/a
6	NR2F2	chr10:99036980-99037339	K562	blood:	n/a	n/a
7	NR2F2	chr10:99036947-99037347	K562	blood:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:99030229..99033115-chr10:99036634..99039427,3	K562	blood:
2	chr10:99037600..99039792-chr10:99078754..99080411,2	K562	blood:
3	chr10:99029216..99031729-chr10:99037036..99038703,2	K562	blood:
4	chr10:99031855..99035094-chr10:99036519..99039061,3	K562	blood:
5	chr10:99034381..99036020-chr10:99036062..99037985,2	K562	blood:
6	chr10:99036931..99039171-chr10:99085750..99087329,2	K562	blood:
7	chr10:99036915..99039794-chr10:99077195..99080138,2	MCF-7	breast:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FRAT1-3	chr10:99034769-99034864	NONHSAT015852
2	lnc-FRAT1-3	chr10:99037396-99037514	NONHSAT015852

No data

Variant related genes	Relation type
ARHGAP19	TF binding region
ENSG00000231398	TF binding region
ENSG00000165879	chromatin interactions
ENSG00000231398	chromatin interactions
ENSG00000213390	chromatin interactions

Extended variants
information (count: 62 )
Associated
traits (count: 65 )

Variant overlapped rSNPs/rCNVs (count:62 , 50 per page) page: 1 2

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs567990388	chr10:99034112-99034113	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
2	rs112251400	chr10:99034178-99034179	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs535414863	chr10:99034198-99034199	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
4	rs552100746	chr10:99034221-99034222	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
5	rs60869967	chr10:99034234-99034235	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
6	rs546430745	chr10:99034247-99034248	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
7	rs372411196	chr10:99034257-99034258	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
8	rs2244070	chr10:99034285-99034286	Weak transcription Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
9	rs12355523	chr10:99034292-99034293	Weak transcription Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
10	rs143977276	chr10:99034321-99034322	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
11	rs576271816	chr10:99034337-99034338	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
12	rs541854870	chr10:99034339-99034340	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
13	rs12355526	chr10:99034349-99034350	Weak transcription Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
14	rs555615798	chr10:99034381-99034382	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
15	rs182059799	chr10:99034393-99034394	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
16	rs184818854	chr10:99034396-99034397	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
17	rs74232149	chr10:99034408-99034409	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
18	rs188831046	chr10:99034482-99034483	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
19	rs545063184	chr10:99034558-99034559	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
20	rs563560251	chr10:99034564-99034565	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
21	rs74152153	chr10:99034582-99034583	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
22	rs549444855	chr10:99034651-99034652	Weak transcription Enhancers Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
23	rs547932021	chr10:99034669-99034670	Weak transcription Enhancers Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
24	rs181590717	chr10:99034672-99034673	Weak transcription Enhancers Strong transcription Genic enhancers	n/a	n/a	Overlapped CNVs	n/a
25	rs185310280	chr10:99034762-99034763	Weak transcription Enhancers Strong transcription Genic enhancers	TF binding region	2 gene(s)	Overlapped CNVs	n/a
26	rs114281695	chr10:99034823-99034824	Weak transcription Enhancers	TF binding region lncRNA	1 gene(s)	Overlapped CNVs	n/a
27	rs78376466	chr10:99034835-99034836	Weak transcription Enhancers	TF binding region lncRNA	1 gene(s)	Overlapped CNVs	n/a
28	rs373060920	chr10:99034870-99034871	Weak transcription Enhancers	TF binding region	1 gene(s)	Overlapped CNVs	n/a
29	rs373539728	chr10:99034874-99034875	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
30	rs377296930	chr10:99034875-99034876	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
31	rs551475141	chr10:99034876-99034877	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
32	rs569895398	chr10:99034877-99034878	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
33	rs113791038	chr10:99035100-99035101	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
34	rs556926690	chr10:99035331-99035332	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
35	rs572506160	chr10:99035377-99035378	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
36	rs9663652	chr10:99036412-99036413	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
37	rs9804257	chr10:99036422-99036423	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
38	rs9804258	chr10:99036423-99036424	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
39	rs9325485	chr10:99036436-99036437	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
40	rs9665520	chr10:99036539-99036540	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
41	rs537229996	chr10:99036552-99036553	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
42	rs555418889	chr10:99036556-99036557	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
43	rs9804331	chr10:99036604-99036605	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
44	rs9804277	chr10:99036700-99036701	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
45	rs9804379	chr10:99036753-99036754	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
46	rs9804275	chr10:99036778-99036779	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
47	rs13376901	chr10:99036781-99036782	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
48	rs13376902	chr10:99036787-99036788	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
49	rs9804276	chr10:99036828-99036829	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
50	rs9731615	chr10:99036897-99036898	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a

Variant related diseases (count:65)

Disease	PMID	Source
Gastric cancer	17908304	CNVD
Chordoma	21602918	CNVD
Ewing''s sarcoma	21437220	CNVD
Glioblastoma multiforme	21080181	CNVD
Medulloblastoma	21979893	CNVD
Melanoma	18172304	CNVD
Pleomorphic xanthoastrocytoma	20730472	CNVD
Ewing''s sarcoma	17952124	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Acute lymphoblastic leukemia	20724749	CNVD
Autism	22495311	CNVD
Prostate cancer	18632612	CNVD
Cockayne syndrome	18421352	CNVD
Glioblastoma	16823260	CNVD
Medulloblastoma	16968546	CNVD
Neuroblastoma	17533364	CNVD
Squamous cell cancer	21044232	CNVD
Glioma	21971842	CNVD
Cancer	21637783	CNVD
Non-small cell lung cancer	21044232	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Colorectal cancer	20709793	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Liposarcoma	21253554	CNVD
Oligodendroglial tumors	17285580	CNVD
Lung cancer	18438408	CNVD
Medulloblastoma	16783165	CNVD
Breast cancer	21785460	CNVD
Acute myeloid leukemia	20729466	CNVD
Paraganglioma	17535989	CNVD
Gastrointestinal stromal cancer	17535989	CNVD
Pancreatic endocrine tumor	17639061	CNVD
Pulmonary chondroma	17535989	CNVD
Glioblastoma multiforme	17002787	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	17603634	CNVD
Glioblastoma multiforme	17387387	CNVD
Breast cancer	21364760	CNVD
High-grade prostatic intraepithelial neoplasia	16573809	CNVD
Wilms tumour	21544195	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Urothelial carcinoma	21177765	CNVD
Prostate cancer	16573809	CNVD
Breast cancer	16608533	CNVD
Glioblastoma multiforme	22286061	CNVD
small cell lung cancer	20016488	CNVD
Acute lymphoblastic leukemia	21339820	CNVD
Lung cancer	16773561	CNVD
Colorectal cancer	16912164	CNVD
Myelofibrosis	22110671	CNVD
Acute lymphoblastic leukemia	21390130	CNVD
Autosomal dominant partial epilepsy	18472482	CNVD
Breast cancer	16397240	CNVD
Myxofibrosarcoma	16751306	CNVD
Breast cancer	17393978	CNVD
Ovarian cancer	21720365	CNVD
Ependymoma	20639864	CNVD
Lung adenocarcinoma	21935476	CNVD
Breast cancer	22522925	CNVD
Pancreatic cancer	17952125	CNVD
Non-syndromic sensorineural hearing loss	18451855	CNVD

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98978600-99037400	Weak transcription	HSMM	muscle
2	chr10:98978600-99051800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr10:98983000-99037600	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr10:98984600-99037600	Weak transcription	Brain Hippocampus Middle	brain
5	chr10:98987200-99051200	Weak transcription	Pancreas	Pancrea
6	chr10:98989000-99034600	Weak transcription	Aorta	Aorta
7	chr10:98989600-99038000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr10:98990000-99034600	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr10:98994600-99039000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr10:99004800-99037400	Weak transcription	Fetal Heart	heart
11	chr10:99005200-99046800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr10:99013200-99037600	Weak transcription	NHLF	lung
13	chr10:99015000-99038000	Weak transcription	Fetal Brain Male	brain
14	chr10:99015400-99038200	Weak transcription	Rectal Smooth Muscle	rectum
15	chr10:99016000-99038600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr10:99016200-99038200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr10:99016800-99038600	Weak transcription	HUVEC	blood vessel
18	chr10:99019200-99034600	Weak transcription	Liver	Liver
19	chr10:99019400-99038200	Weak transcription	K562	blood
20	chr10:99019400-99050000	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr10:99019400-99051600	Weak transcription	Ovary	ovary
22	chr10:99021400-99051000	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr10:99023600-99051200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr10:99024000-99034400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr10:99024000-99046800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr10:99024000-99050800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr10:99024400-99050000	Weak transcription	Spleen	Spleen
28	chr10:99024800-99034600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr10:99024800-99051200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr10:99025600-99034600	Weak transcription	Primary B cells from peripheral blood	blood
31	chr10:99025800-99037200	Weak transcription	Primary hematopoietic stem cells	blood
32	chr10:99025800-99037400	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr10:99025800-99038000	Weak transcription	Fetal Stomach	stomach
34	chr10:99025800-99039200	Weak transcription	Fetal Muscle Trunk	muscle
35	chr10:99025800-99039200	Weak transcription	Fetal Muscle Leg	muscle
36	chr10:99025800-99050800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr10:99026000-99037400	Weak transcription	Dnd41	blood
38	chr10:99026000-99037400	Weak transcription	GM12878-XiMat	blood
39	chr10:99026000-99038600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr10:99026000-99051200	Weak transcription	Primary T cells from cord blood	blood
41	chr10:99026200-99037400	Weak transcription	Primary B cells from cord blood	blood
42	chr10:99026200-99037400	Weak transcription	Monocytes-CD14+_RO01746	blood
43	chr10:99027600-99046200	Weak transcription	Thymus	Thymus
44	chr10:99027800-99045600	Weak transcription	Fetal Thymus	thymus
45	chr10:99028400-99038200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr10:99028600-99051200	Weak transcription	Small Intestine	intestine
47	chr10:99028800-99046800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr10:99029400-99037800	Weak transcription	Duodenum Mucosa	Duodenum
49	chr10:99030600-99034600	Weak transcription	Adipose Nuclei	Adipose
50	chr10:99030600-99037400	Weak transcription	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links