Variant report

Variant	esv3486964
Chromosome Location	chr12:48725467-48728396
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:61)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	NR2F2	chr12:48725487-48725856	K562	blood:	n/a	n/a
2	NR2F2	chr12:48725531-48725788	K562	blood:	n/a	n/a
3	POLR2A	chr12:48727353-48727474	GM12878	blood:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr12:48727676-48727726	HEK293	kidney:	embryo
2	chr12:48727676-48727726	HRE	kidney:	n/a
3	chr12:48727676-48727726	SK-N-SH	brain:	n/a
4	chr12:48727676-48727726	AoSMC	blood vessel:	n/a
5	chr12:48727676-48727726	HMEC	breast:	n/a
6	chr12:48727676-48727726	NHDF-neo	bronchial:	n/a
7	chr12:48727676-48727726	HRCEpiC	kidney:	n/a
8	chr12:48727676-48727726	IMR90	lung:	fetal
9	chr12:48727676-48727726	Hepatocyte	liver:	n/a
10	chr12:48727676-48727726	HCM	heart:	n/a
11	chr12:48727676-48727726	PFSK-1	brain:	n/a
12	chr12:48727676-48727726	LNCaP	prostate:	n/a
13	chr12:48727676-48727726	HRPEpiC	eye:	n/a
14	chr12:48727676-48727726	T-47D	breast:	n/a
15	chr12:48727676-48727726	NT2-D1	testis:	n/a
16	chr12:48727676-48727726	HIPEpiC	eye:	n/a
17	chr12:48727676-48727726	GM06990	blood:	n/a
18	chr12:48727676-48727726	NHBE	bronchial:	n/a
19	chr12:48727676-48727726	PANC-1	pancreas:	n/a
20	chr12:48727676-48727726	AG04450	lung:	fetal
21	chr12:48727676-48727726	Hela-S3	cervix:	n/a
22	chr12:48727676-48727726	K562	blood:	n/a
23	chr12:48727676-48727726	HCF	heart:	n/a
24	chr12:48727676-48727726	U87	brain:	n/a
25	chr12:48727676-48727726	CMK	blood:	n/a
26	chr12:48727676-48727726	SAEC	small airway:	n/a
27	chr12:48727676-48727726	GM12878	blood:	n/a
28	chr12:48727676-48727726	BJ	skin:	n/a
29	chr12:48727676-48727726	SKMC	muscle:	n/a
30	chr12:48727676-48727726	NH-A	brain:	n/a
31	chr12:48727676-48727726	AG09319	gingival:	n/a
32	chr12:48727676-48727726	AG04449	skin:	fetal
33	chr12:48727676-48727726	NB4	blood:	n/a
34	chr12:48727676-48727726	HL-60	blood:	n/a
35	chr12:48727676-48727726	ECC-1	luminal epithelium:	n/a
36	chr12:48727676-48727726	HUVEC	blood vessel:	n/a
37	chr12:48727676-48727726	A549	lung:	n/a
38	chr12:48727676-48727726	ovcar-3	ovarian:	n/a
39	chr12:48727676-48727726	HAEpiC	amniotic membrane:	n/a
40	chr12:48727676-48727726	HPAEpiC	pulmonary alveolar:	n/a
41	chr12:48727676-48727726	H1-hESC	embryonic stem cell:	embryo
42	chr12:48727676-48727726	HNPCEpiC	eye:	n/a
43	chr12:48727676-48727726	GM19239	blood:	n/a
44	chr12:48727676-48727726	RPTEC	kidney:	n/a
45	chr12:48727676-48727726	SK-N-SH_RA	brain:	n/a
46	chr12:48727676-48727726	AG10803	skin:	n/a
47	chr12:48727676-48727726	BE2_C	brain:	n/a
48	chr12:48727676-48727726	MCF-7	breast:	n/a
49	chr12:48727676-48727726	ProgFib	skin:	n/a
50	chr12:48727676-48727726	HCT-116	colon:	n/a

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr12:48724124..48726924-chr12:48729668..48731393,3	MCF-7	breast:
2	chr12:48595137..48597304-chr12:48723184..48725728,2	K562	blood:
3	chr12:48727374..48736715-chr12:48738720..48747602,13	K562	blood:
4	chr12:48723401..48726015-chr12:48731031..48733987,2	K562	blood:
5	chr12:48723517..48726373-chr12:48743462..48746154,2	MCF-7	breast:
6	chr12:48724931..48726830-chr12:48727144..48729344,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000258273	TF binding region
ENSG00000258273	CpG island
ENSG00000167528	chromatin interactions
ENSG00000258273	chromatin interactions
ENSG00000172640	chromatin interactions
ENSG00000257735	chromatin interactions

Extended variants
information (count: 59 )
Associated
traits (count: 67 )

Variant overlapped rSNPs/rCNVs (count:59 , 50 per page) page: 1 2

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs555444928	chr12:48725479-48725480	Weak transcription	Chromatin interactive region	4 gene(s)	Overlapped CNVs	n/a
2	rs370624293	chr12:48725480-48725481	Weak transcription	Chromatin interactive region	4 gene(s)	Overlapped CNVs	n/a
3	rs112939020	chr12:48725482-48725483	Weak transcription	Chromatin interactive region	4 gene(s)	Overlapped CNVs	n/a
4	rs144425258	chr12:48725488-48725489	Weak transcription	Chromatin interactive region	4 gene(s)	Overlapped CNVs	n/a
5	rs111449445	chr12:48725490-48725491	Weak transcription	Chromatin interactive region	4 gene(s)	Overlapped CNVs	n/a
6	rs71080104	chr12:48725491-48725492	Weak transcription	Chromatin interactive region	4 gene(s)	Overlapped CNVs	n/a
7	rs71445743	chr12:48725630-48725631	Weak transcription	Chromatin interactive region	4 gene(s)	Overlapped CNVs	n/a
8	rs376820368	chr12:48725702-48725703	Weak transcription	Chromatin interactive region	4 gene(s)	Overlapped CNVs	n/a
9	rs543340350	chr12:48725723-48725724	Weak transcription	Chromatin interactive region	4 gene(s)	Overlapped CNVs	n/a
10	rs375826568	chr12:48725740-48725741	Weak transcription	Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
11	rs540505018	chr12:48725751-48725752	Weak transcription	Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
12	rs529146064	chr12:48725759-48725760	Weak transcription	Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
13	rs561838171	chr12:48725765-48725766	Weak transcription	Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
14	rs375366755	chr12:48726104-48726105	Weak transcription	Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
15	rs561450977	chr12:48726123-48726124	Weak transcription	Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
16	rs111286049	chr12:48726125-48726126	Weak transcription	Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
17	rs112335222	chr12:48726232-48726233	Weak transcription	Chromatin interactive region	3 gene(s)	Overlapped CNVs	n/a
18	rs371930661	chr12:48726502-48726503	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
19	rs201265187	chr12:48726519-48726520	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
20	rs565641975	chr12:48726610-48726611	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
21	rs528188311	chr12:48726613-48726614	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
22	rs112872232	chr12:48726649-48726650	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
23	rs113781161	chr12:48726657-48726658	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
24	rs200695345	chr12:48726776-48726777	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
25	rs376813822	chr12:48727103-48727104	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
26	rs558424110	chr12:48727189-48727190	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
27	rs12231094	chr12:48727246-48727247	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
28	rs61942768	chr12:48727424-48727425	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
29	rs551483649	chr12:48727440-48727441	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
30	rs571895605	chr12:48727560-48727561	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
31	rs537635571	chr12:48727561-48727562	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
32	rs564480963	chr12:48727599-48727600	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
33	rs373747312	chr12:48727600-48727601	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
34	rs543391157	chr12:48727607-48727608	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
35	rs71445746	chr12:48727609-48727610	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
36	rs567973137	chr12:48727623-48727624	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
37	rs111867928	chr12:48727671-48727672	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
38	rs536906384	chr12:48727674-48727675	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
39	rs553115750	chr12:48727678-48727679	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
40	rs573158410	chr12:48727775-48727776	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
41	rs538792751	chr12:48727843-48727844	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
42	rs558606014	chr12:48727905-48727906	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
43	rs550295630	chr12:48728012-48728013	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
44	rs370204051	chr12:48728055-48728056	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
45	rs118158491	chr12:48728070-48728071	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
46	rs148286276	chr12:48728098-48728099	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
47	rs563095593	chr12:48728143-48728144	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
48	rs34036438	chr12:48728170-48728171	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
49	rs36090908	chr12:48728206-48728207	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
50	rs551702617	chr12:48728229-48728230	Weak transcription	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a

Variant related diseases (count:67)

Disease	PMID	Source
Chronic lymphocytic leukemia	21546498	CNVD
Seminomas	18059402	CNVD
Wilms tumour	21544195	CNVD
Esophageal cancer	21851588	CNVD
Lung cancer	20668451	CNVD
Breast cancer	20668451	CNVD
Cancer	20668451	CNVD
Ovarian cancer	20668451	CNVD
Pancreas cancer	20668451	CNVD
Prostate cancer	20668451	CNVD
Ewing''s sarcoma	21437220	CNVD
Testicular germ cell tumor	18059402	CNVD
Medulloblastoma	21979893	CNVD
Malaria	21533027	CNVD
Chronic lymphocytic leukemia	22228453	CNVD
Basal cell lymphoma	17053054	CNVD
Chronic lymphocytic leukemia	21670202	CNVD
Ewing''s sarcoma	17952124	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Autism	22495311	CNVD
Neurodevelopmental disorder	22521361	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Renal cell carcinoma	18194544	CNVD
Breast cancer	21949216	CNVD
Carcinoma ex pleomorphic adenoma	18828159	CNVD
Acute myeloid leukemia	16864856	CNVD
Cancer	21637783	CNVD
Glioblastoma multiforme	21080181	CNVD
Renal cell carcinoma	19461508	CNVD
Burkitt''s lymphoma	18698080	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	21264507	CNVD
Glioblastoma multiforme	19960244	CNVD
Gastrointestinal stromal cancer	20470368	CNVD
Adenoid cystic carcinoma	17372589	CNVD
Hirschsprung''s Disease	21712996	CNVD
Lissencephaly	21572526	CNVD
Lung cancer	18438408	CNVD
Malignant peripheral nerve sheath tumor	18522746	CNVD
Adenoid cystic carcinoma	18698036	CNVD
Breast cancer	19602461	CNVD
Breast cancer	17899364	CNVD
Colorectal cancer	16272173	CNVD
low-grade B-cell lymphoma tumor	18367492	CNVD
Adenoid cystic carcinoma	18332873	CNVD
Breast cancer	21364760	CNVD
Prostate cancer	18632612	CNVD
Follicular lymphoma	20505157	CNVD
Hepatocellular carcinoma	16750200	CNVD
Melanoma	18172304	CNVD
Metanephric adenoma	20802469	CNVD
Glioblastoma multiforme	17387387	CNVD
liposarcomas	17372913	CNVD
Non-small cell lung cancer	24170126	CNVD
Cancer	16751803	CNVD
Hodgkin''s lymphoma	18641027	CNVD
Bladder cancer	21909424	CNVD
Multiple myeloma	16616336	CNVD
Intracranial aneurysm	16715129	CNVD
Breast cancer	17661082	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Breast cancer	21785460	CNVD
small cell lung cancer	20016488	CNVD
Myelofibrosis	22110671	CNVD
Intracranial ependymoma	16609018	CNVD

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:48723800-48736600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr12:48724200-48734400	Weak transcription	Thymus	Thymus
3	chr12:48724400-48736000	Weak transcription	Fetal Stomach	stomach
4	chr12:48725200-48734600	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr12:48725200-48735800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr12:48725200-48736800	Weak transcription	Hela-S3	cervix
7	chr12:48728000-48736000	Weak transcription	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links