Variant report

Variant	rs10220441
Chromosome Location	chr14:55820927-55820928
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr14:55727647..55729391-chr14:55818839..55821445,2	MCF-7	breast:
2	chr14:55764219..55765273-chr14:55820714..55821903,4	MCF-7	breast:
3	chr14:55813775..55816746-chr14:55819381..55821287,2	MCF-7	breast:
4	chr14:55812369..55814760-chr14:55818097..55821866,3	MCF-7	breast:
5	chr14:55820434..55823262-chr14:55823747..55828312,4	K562	blood:
6	chr14:55737428..55739982-chr14:55820352..55823007,3	K562	blood:
7	chr14:55817121..55819281-chr14:55819678..55821286,2	MCF-7	breast:
8	chr14:55737506..55738720-chr14:55820321..55822020,12	MCF-7	breast:
9	chr14:55737146..55740453-chr14:55819969..55824723,7	MCF-7	breast:
10	chr14:55736773..55740408-chr14:55819454..55822170,5	MCF-7	breast:
11	chr14:55809381..55811401-chr14:55819564..55823074,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000178974	Chromatin interaction
ENSG00000258413	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10130894	0.86[EUR][1000 genomes]
rs10134937	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10135891	1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10138838	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10144869	0.81[ASW][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10149926	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10162552	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11844441	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11845802	0.83[EUR][1000 genomes]
rs11851023	0.96[YRI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13379398	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13379420	0.85[YRI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17128370	0.82[ASW][hapmap];0.98[LWK][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap]
rs17128434	0.96[YRI][hapmap];0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17128438	1.00[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1886784	0.86[MEX][hapmap]
rs2050669	0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2065998	0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2341536	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs28379450	0.86[EUR][1000 genomes]
rs28661252	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3759666	0.86[MEX][hapmap]
rs4334208	0.81[AMR][1000 genomes]
rs56042503	0.82[AMR][1000 genomes]
rs61662514	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7148959	0.83[EUR][1000 genomes]
rs74050963	0.86[EUR][1000 genomes]
rs74050975	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs74053904	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8007038	0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8016716	0.86[MEX][hapmap];0.91[MKK][hapmap]
rs8021377	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9323282	0.80[AMR][1000 genomes]
rs946058	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9652341	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1039438	chr14:55746585-55886099	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv901957	chr14:55819219-55853724	Weak transcription Strong transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:55800600-55823600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr14:55801200-55842800	Weak transcription	Fetal Brain Male	brain
3	chr14:55808800-55865200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr14:55813600-55837200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr14:55814000-55830400	Weak transcription	Colon Smooth Muscle	Colon
6	chr14:55814400-55853200	Weak transcription	Right Atrium	heart
7	chr14:55816000-55837200	Weak transcription	K562	blood
8	chr14:55816400-55823600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr14:55816600-55823000	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr14:55817000-55821000	Strong transcription	Primary neutrophils fromperipheralblood	blood
11	chr14:55817000-55822800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr14:55817200-55821000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr14:55817200-55822800	Strong transcription	GM12878-XiMat	blood
14	chr14:55817200-55823000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr14:55817200-55823200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr14:55817200-55823200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr14:55817200-55823800	Strong transcription	Dnd41	blood
18	chr14:55817200-55826200	Strong transcription	Fetal Muscle Trunk	muscle
19	chr14:55817200-55826400	Strong transcription	Fetal Stomach	stomach
20	chr14:55818000-55841800	Weak transcription	Hela-S3	cervix
21	chr14:55818200-55842800	Weak transcription	Brain Angular Gyrus	brain
22	chr14:55818200-55877600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr14:55818400-55821800	Weak transcription	Fetal Lung	lung
24	chr14:55818400-55832400	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr14:55818400-55858800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr14:55818800-55821000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr14:55818800-55821000	Weak transcription	Brain Substantia Nigra	brain
28	chr14:55818800-55842600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr14:55819000-55835200	Weak transcription	NH-A	brain
30	chr14:55819200-55821200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr14:55819200-55821600	Weak transcription	Brain Germinal Matrix	brain
32	chr14:55819200-55822000	Weak transcription	NHLF	lung
33	chr14:55819200-55831600	Weak transcription	Aorta	Aorta
34	chr14:55819200-55832400	Weak transcription	HUVEC	blood vessel
35	chr14:55819200-55835400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr14:55819200-55836400	Weak transcription	Ovary	ovary
37	chr14:55819200-55842800	Weak transcription	Rectal Smooth Muscle	rectum
38	chr14:55819400-55821000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr14:55819400-55821000	Weak transcription	Brain Anterior Caudate	brain
40	chr14:55819400-55821200	Weak transcription	Primary B cells from peripheral blood	blood
41	chr14:55819400-55822000	Weak transcription	Esophagus	oesophagus
42	chr14:55819400-55822200	Weak transcription	Adipose Nuclei	Adipose
43	chr14:55819400-55823000	Weak transcription	HepG2	liver
44	chr14:55819400-55832200	Weak transcription	Brain Cingulate Gyrus	brain
45	chr14:55819400-55832200	Weak transcription	Pancreas	Pancrea
46	chr14:55819400-55833400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
47	chr14:55819400-55847800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr14:55819400-55850600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr14:55819400-55855200	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr14:55819600-55821000	Weak transcription	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links