Variant report

Variant	rs7417393
Chromosome Location	chr1:214435506-214435507
allele	A/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:1)
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	chr1:214434228..214435551-chr1:214501884..214502584,5	MCF-7	breast:
2	chr1:214435275..214437855-chr1:214502738..214505540,3	MCF-7	breast:
3	chr1:214428808..214430367-chr1:214434975..214437389,2	K562	blood:
4	chr1:214434879..214436535-chr1:214480946..214483436,2	K562	blood:
5	chr1:214434477..214435598-chr1:214501707..214502889,10	K562	blood:
6	chr1:214403296..214403832-chr1:214434604..214435521,2	K562	blood:
7	chr1:214434555..214435680-chr1:214504881..214505799,6	K562	blood:
8	chr1:214389620..214391385-chr1:214433581..214436069,2	MCF-7	breast:
9	chr1:214387550..214390351-chr1:214433953..214436701,3	MCF-7	breast:
10	chr1:214433581..214436462-chr1:214445648..214448641,2	K562	blood:
11	chr1:214434784..214436846-chr1:214500502..214502326,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PTPN14-2	chr1:214427429-214436307	XLOC_001200

No data

Variant related genes	Relation type
ENSG00000143499	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs1134647	1.00[AFR][1000 genomes]
rs1147675	0.84[AMR][1000 genomes]
rs1147677	0.87[AMR][1000 genomes]
rs12124666	1.00[AFR][1000 genomes]
rs4655240	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4655325	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6540815	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs766499	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:214433200-214437000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:214433200-214437200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr1:214433200-214437200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr1:214433400-214437000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:214434200-214436200	Enhancers	Fetal Heart	heart
6	chr1:214434600-214435800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr1:214434600-214436200	Enhancers	Fetal Muscle Leg	muscle
8	chr1:214434800-214435600	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr1:214434800-214435600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr1:214434800-214435800	Enhancers	Cortex derived primary cultured neurospheres	brain
11	chr1:214434800-214435800	Enhancers	Fetal Brain Male	brain
12	chr1:214435000-214435600	Bivalent Enhancer	Brain Anterior Caudate	brain
13	chr1:214435000-214435600	Bivalent Enhancer	Fetal Kidney	kidney
14	chr1:214435000-214435800	Enhancers	Fetal Brain Female	brain
15	chr1:214435400-214435600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr1:214435400-214435600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr1:214435400-214435600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr1:214435400-214435600	Enhancers	Brain Cingulate Gyrus	brain
19	chr1:214435400-214435600	Bivalent Enhancer	Brain Hippocampus Middle	brain
20	chr1:214435400-214435600	Enhancers	Brain Inferior Temporal Lobe	brain
21	chr1:214435400-214435600	Enhancers	Fetal Muscle Trunk	muscle
22	chr1:214435400-214435600	Enhancers	A549	lung
23	chr1:214435400-214435600	Enhancers	Hela-S3	cervix
24	chr1:214435400-214435600	Enhancers	NHEK	skin
25	chr1:214435400-214435600	Enhancers	Osteobl	bone
26	chr1:214435400-214435800	Enhancers	Muscle Satellite Cultured Cells	--
27	chr1:214435400-214436000	Enhancers	Skeletal Muscle Female	skeletal muscle
28	chr1:214435400-214436200	Enhancers	Skeletal Muscle Male	skeletal muscle
29	chr1:214435400-214437200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr1:214435400-214437400	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr1:214435400-214437600	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr1:214435400-214437800	Weak transcription	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links