Variant report

Variant	rs9806049
Chromosome Location	chr14:55525589-55525590
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr14:55525486-55525629	MCF10A-Er-Src	breast:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr14:55524853..55528129-chr14:55532320..55535008,3	MCF-7	breast:
2	chr14:55524555..55526543-chr14:55613786..55615923,2	MCF-7	breast:
3	chr14:55523578..55526318-chr14:55741498..55744199,2	K562	blood:
4	chr14:55524393..55526370-chr14:55595207..55597069,2	MCF-7	breast:
5	chr14:55524833..55527263-chr14:55546482..55548147,2	MCF-7	breast:
6	chr14:55525084..55526733-chr14:55558948..55561565,2	K562	blood:
7	chr14:55523912..55526776-chr14:55532396..55534870,2	K562	blood:

No data

Variant related genes	Relation type
MAPK1IP1L	TF binding region
ENSG00000131981	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1002054	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10135721	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10145170	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10145268	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.93[JPT][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10220693	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1107960	0.80[JPT][hapmap]
rs11848846	0.80[EUR][1000 genomes]
rs11849090	0.82[ASN][1000 genomes]
rs11849878	0.87[ASN][1000 genomes]
rs11849961	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs11851178	1.00[CHB][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs1187876	0.96[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.93[YRI][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1187877	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.93[JPT][hapmap];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1187878	0.93[CHB][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs1187881	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1187882	0.85[CHB][hapmap]
rs1187883	0.81[CEU][hapmap];0.81[YRI][hapmap];0.80[EUR][1000 genomes]
rs1201378	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.93[JPT][hapmap];0.86[MKK][hapmap];0.87[YRI][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1209087	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.93[JPT][hapmap];0.86[MKK][hapmap];0.87[YRI][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13379159	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];0.81[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17128120	0.81[JPT][hapmap]
rs17128128	0.86[ASN][1000 genomes]
rs17128132	1.00[CHB][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs17128145	1.00[CHB][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17832311	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];0.81[LWK][hapmap];0.88[MKK][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1952085	1.00[CHB][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs2147964	0.88[CEU][hapmap]
rs2251366	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2340921	0.88[CEU][hapmap]
rs2878174	0.81[JPT][hapmap]
rs3742564	1.00[CHB][hapmap];0.96[CHD][hapmap];0.93[JPT][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56262555	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56725788	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60805089	0.86[ASN][1000 genomes]
rs6572999	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];0.94[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6573000	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7141975	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7144652	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7146285	0.81[JPT][hapmap]
rs7149965	1.00[CHB][hapmap];0.84[CHD][hapmap];0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs7150145	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs7151224	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7151431	0.87[ASN][1000 genomes]
rs7161656	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs748017	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8004416	0.82[EUR][1000 genomes]
rs8005399	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];0.93[MKK][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8008134	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.87[JPT][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8012152	0.81[JPT][hapmap]
rs8012156	0.88[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.80[AMR][1000 genomes]
rs8012676	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs8019978	0.88[CEU][hapmap]
rs8021929	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8022049	0.81[JPT][hapmap]
rs8022238	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8022405	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9323278	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932970	chr14:55326559-55532749	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:55519200-55529400	Weak transcription	Spleen	Spleen
2	chr14:55519400-55529200	Weak transcription	Pancreas	Pancrea
3	chr14:55519600-55528600	Weak transcription	Colonic Mucosa	Colon
4	chr14:55519600-55529400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr14:55519600-55529400	Weak transcription	Esophagus	oesophagus
6	chr14:55519600-55534400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr14:55519600-55538000	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr14:55519800-55526200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr14:55520000-55526000	Weak transcription	Brain Hippocampus Middle	brain
10	chr14:55520000-55528600	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr14:55520000-55529400	Weak transcription	Aorta	Aorta
12	chr14:55520000-55529400	Weak transcription	Fetal Brain Female	brain
13	chr14:55520200-55528000	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr14:55520200-55528400	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr14:55520200-55529000	Weak transcription	Brain Anterior Caudate	brain
16	chr14:55520200-55529000	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr14:55520200-55529200	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr14:55520200-55529600	Weak transcription	Brain Cingulate Gyrus	brain
19	chr14:55520200-55538400	Weak transcription	Fetal Kidney	kidney
20	chr14:55520400-55526000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr14:55520400-55526600	Strong transcription	HUES48 Cell Line	embryonic stem cell
22	chr14:55520400-55529000	Weak transcription	Brain Germinal Matrix	brain
23	chr14:55520400-55538200	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr14:55520600-55526600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr14:55520600-55528400	Weak transcription	Colon Smooth Muscle	Colon
26	chr14:55520600-55528600	Weak transcription	Stomach Mucosa	stomach
27	chr14:55520600-55528600	Weak transcription	Stomach Smooth Muscle	stomach
28	chr14:55520600-55529000	Weak transcription	Fetal Lung	lung
29	chr14:55520600-55529000	Weak transcription	Rectal Smooth Muscle	rectum
30	chr14:55520600-55529200	Weak transcription	Brain Substantia Nigra	brain
31	chr14:55520600-55533600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
32	chr14:55520600-55535000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr14:55520600-55538000	Weak transcription	Psoas Muscle	Psoas
34	chr14:55520600-55538600	Weak transcription	Fetal Brain Male	brain
35	chr14:55520800-55526800	Genic enhancers	Primary T helper cells PMA-I stimulated	--
36	chr14:55520800-55529400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr14:55520800-55529400	Weak transcription	Brain Angular Gyrus	brain
38	chr14:55520800-55534800	Strong transcription	HUES64 Cell Line	embryonic stem cell
39	chr14:55520800-55535200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr14:55521000-55529600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr14:55521200-55528400	Weak transcription	Liver	Liver
42	chr14:55521200-55529400	Weak transcription	Right Ventricle	heart
43	chr14:55521400-55526400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr14:55521600-55526600	Strong transcription	NHDF-Ad	bronchial
45	chr14:55521600-55529400	Weak transcription	Primary B cells from cord blood	blood
46	chr14:55521600-55529400	Weak transcription	HSMMtube	muscle
47	chr14:55521600-55535400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
48	chr14:55521600-55535400	Strong transcription	NHEK	skin
49	chr14:55521800-55526000	Strong transcription	Fetal Intestine Small	intestine
50	chr14:55522000-55525600	Strong transcription	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links