Variant report

Variant	rs1440405
Chromosome Location	chr4:75031794-75031795
allele	A/C
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	chr4:75030710..75033406-chr4:75092166..75094201,2	K562	blood:
2	chr4:75030705..75032456-chr4:75033958..75036294,2	MCF-7	breast:
3	chr4:75028000..75030668-chr4:75031442..75033767,3	MCF-7	breast:
4	chr4:75031722..75034011-chr4:75130972..75132629,2	MCF-7	breast:
5	chr4:74513203..74514864-chr4:75031720..75034502,2	K562	blood:
6	chr4:75031145..75034736-chr4:75177641..75180558,3	K562	blood:
7	chr4:75030845..75032521-chr4:75038666..75041397,2	MCF-7	breast:
8	chr4:75021909..75025325-chr4:75030418..75032505,4	MCF-7	breast:
9	chr4:74998740..75001079-chr4:75031773..75033857,2	K562	blood:
10	chr4:75022878..75025928-chr4:75031708..75034530,3	MCF-7	breast:
11	chr4:74956787..74958516-chr4:75030350..75032737,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000163738	Chromatin interaction
ENSG00000269559	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10518119	1.00[EUR][1000 genomes]
rs10938110	1.00[EUR][1000 genomes]
rs11942036	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11946885	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11947475	1.00[EUR][1000 genomes]
rs1440406	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16850579	1.00[EUR][1000 genomes]
rs16850585	1.00[EUR][1000 genomes]
rs4694665	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs474734	1.00[EUR][1000 genomes]
rs479117	1.00[EUR][1000 genomes]
rs507061	1.00[EUR][1000 genomes]
rs522698	1.00[EUR][1000 genomes]
rs536780	1.00[EUR][1000 genomes]
rs552357	1.00[EUR][1000 genomes]
rs55946357	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56000473	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56006412	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56236141	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56896590	1.00[EUR][1000 genomes]
rs569187	1.00[EUR][1000 genomes]
rs569206	1.00[EUR][1000 genomes]
rs58250046	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60336088	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60633195	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6833925	1.00[EUR][1000 genomes]
rs6841682	1.00[EUR][1000 genomes]
rs6850735	1.00[EUR][1000 genomes]
rs73824406	1.00[EUR][1000 genomes]
rs73824413	1.00[EUR][1000 genomes]
rs73824415	1.00[EUR][1000 genomes]
rs73824419	1.00[EUR][1000 genomes]
rs73824429	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73824433	1.00[AMR][1000 genomes]
rs73827550	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73827558	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73827561	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73827562	1.00[EUR][1000 genomes]
rs7681620	1.00[EUR][1000 genomes]
rs7687073	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9685225	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525980	chr4:74731526-75382209	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv1004768	chr4:74774372-75109579	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv1006218	chr4:74782324-75105424	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv594683	chr4:75013441-75106485	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv1013260	chr4:75013441-75121643	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv1002907	chr4:75013441-75131443	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv1004706	chr4:75014770-75121643	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv594684	chr4:75015750-75106485	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:75024400-75032400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr4:75024600-75034000	Weak transcription	Gastric	stomach
3	chr4:75024800-75032000	Weak transcription	Placenta	Placenta
4	chr4:75024800-75032400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr4:75024800-75032600	Weak transcription	Lung	lung
6	chr4:75024800-75033800	Weak transcription	Esophagus	oesophagus
7	chr4:75024800-75033800	Weak transcription	Stomach Mucosa	stomach
8	chr4:75024800-75034400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr4:75024800-75037000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr4:75024800-75056600	Weak transcription	Pancreas	Pancrea
11	chr4:75024800-75080600	Weak transcription	Left Ventricle	heart
12	chr4:75025000-75032400	Weak transcription	Fetal Muscle Trunk	muscle
13	chr4:75025000-75033600	Weak transcription	Fetal Stomach	stomach
14	chr4:75025000-75034000	Weak transcription	Fetal Muscle Leg	muscle
15	chr4:75025000-75046800	Weak transcription	NHDF-Ad	bronchial
16	chr4:75025200-75032400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr4:75025200-75041800	Weak transcription	Aorta	Aorta
18	chr4:75025200-75042600	Weak transcription	Brain Substantia Nigra	brain
19	chr4:75025400-75032000	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr4:75025400-75032000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr4:75025400-75032800	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr4:75025400-75034400	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr4:75025400-75035000	Weak transcription	NHLF	lung
24	chr4:75025400-75067600	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr4:75025400-75073600	Weak transcription	Right Ventricle	heart
26	chr4:75025600-75054200	Weak transcription	Ovary	ovary
27	chr4:75025600-75067600	Weak transcription	Thymus	Thymus
28	chr4:75025800-75032000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr4:75025800-75032400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr4:75025800-75032400	Weak transcription	Spleen	Spleen
31	chr4:75025800-75034400	Weak transcription	Fetal Intestine Small	intestine
32	chr4:75025800-75049200	Weak transcription	Psoas Muscle	Psoas
33	chr4:75026800-75034800	Weak transcription	Skeletal Muscle Female	skeletal muscle
34	chr4:75026800-75049200	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr4:75027200-75031800	Weak transcription	HUVEC	blood vessel
36	chr4:75027200-75032600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr4:75027200-75044400	Weak transcription	Stomach Smooth Muscle	stomach
38	chr4:75027600-75031800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr4:75027600-75046600	Weak transcription	Primary T helper cells fromperipheralblood	blood
40	chr4:75027800-75033800	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr4:75027800-75049200	Weak transcription	Adipose Nuclei	Adipose
42	chr4:75027800-75054600	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr4:75028000-75032000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr4:75028000-75032000	Weak transcription	Duodenum Mucosa	Duodenum
45	chr4:75028000-75032000	Weak transcription	Hela-S3	cervix
46	chr4:75028000-75033400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr4:75028000-75039200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr4:75028200-75031800	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr4:75028200-75031800	Weak transcription	Primary B cells from peripheral blood	blood
50	chr4:75028200-75040800	Weak transcription	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links