Variant report

Variant	rs17024238
Chromosome Location	chr2:39950043-39950044
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:39941387..39944301-chr2:39949793..39952707,2	MCF-7	breast:
2	chr2:39664058..39665655-chr2:39949878..39951960,2	MCF-7	breast:
3	chr2:39949939..39952717-chr2:39956510..39959520,3	K562	blood:

Variant related genes	Relation type
ENSG00000011566	Chromatin interaction
ENSG00000231312	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs17024328	1.00[EUR][1000 genomes]
rs59757140	1.00[EUR][1000 genomes]
rs61123958	1.00[EUR][1000 genomes]
rs6544240	1.00[EUR][1000 genomes]
rs7570829	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873889	chr2:39830183-39950482	Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv833870	chr2:39837022-40026024	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv833881	chr2:39914558-40067256	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39925000-39957600	Weak transcription	Fetal Stomach	stomach
2	chr2:39931400-39957600	Weak transcription	Fetal Muscle Leg	muscle
3	chr2:39936600-39950600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr2:39938000-39957600	Weak transcription	Fetal Brain Female	brain
5	chr2:39938200-39950600	Weak transcription	HSMMtube	muscle
6	chr2:39940800-39950800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr2:39942000-39963000	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr2:39943200-39956200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr2:39944400-39976600	Weak transcription	Fetal Brain Male	brain
10	chr2:39945200-39954400	Enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr2:39946400-39950600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr2:39946600-39951200	Weak transcription	Aorta	Aorta
13	chr2:39946800-39950600	Weak transcription	Osteobl	bone
14	chr2:39946800-39959600	Weak transcription	Brain Germinal Matrix	brain
15	chr2:39947800-39950200	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr2:39947800-39959800	Weak transcription	Brain Cingulate Gyrus	brain
17	chr2:39948200-39961200	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr2:39948400-39950800	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr2:39948600-39950800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr2:39948600-39950800	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr2:39948600-39950800	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr2:39948800-39952400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr2:39948800-39959600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr2:39949000-39950800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr2:39949000-39950800	Enhancers	Fetal Heart	heart
26	chr2:39949000-39951000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr2:39949000-39951000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr2:39949000-39952400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr2:39949000-39960400	Weak transcription	HUES6 Cell Line	embryonic stem cell
30	chr2:39949800-39950600	Enhancers	Psoas Muscle	Psoas
31	chr2:39949800-39952200	Enhancers	Skeletal Muscle Female	skeletal muscle
32	chr2:39950000-39951000	Enhancers	Left Ventricle	heart
33	chr2:39950000-39953400	Enhancers	NH-A	brain
34	chr2:39950000-39954400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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