Variant report

Variant	rs16846025
Chromosome Location	chr1:173474033-173474034
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:173446841..173450176-chr1:173473892..173477707,4	K562	blood:
2	chr1:173445909..173448174-chr1:173472992..173475545,2	MCF-7	breast:
3	chr1:173471541..173474738-chr1:173476002..173477727,3	MCF-7	breast:
4	chr1:173455943..173458874-chr1:173472089..173474445,2	MCF-7	breast:
5	chr1:173444700..173449124-chr1:173472471..173476984,5	MCF-7	breast:
6	chr1:173454021..173455524-chr1:173471878..173474498,2	K562	blood:
7	chr1:173445753..173447978-chr1:173472675..173475693,4	K562	blood:

Variant related genes	Relation type
ENSG00000117592	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10732994	1.00[AMR][1000 genomes]
rs10737302	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs16846029	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846055	0.82[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846090	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846099	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846103	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846122	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846125	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846129	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846173	0.82[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846204	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35581908	1.00[AMR][1000 genomes]
rs4342885	1.00[AMR][1000 genomes]
rs4354572	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs4567310	1.00[AMR][1000 genomes]
rs4636504	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs56043618	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56236728	0.87[AMR][1000 genomes]
rs59041016	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60055251	0.87[AMR][1000 genomes]
rs60769229	0.87[AMR][1000 genomes]
rs6663036	0.87[AMR][1000 genomes]
rs7513591	1.00[AMR][1000 genomes]
rs7513763	1.00[AMR][1000 genomes]
rs9425410	1.00[AMR][1000 genomes]
rs9425722	1.00[AMR][1000 genomes]
rs9425725	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9425727	1.00[AFR][1000 genomes];1.00[AMR][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	nsv831915	chr1:173268424-173482157	Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:173448000-173477000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:173458600-173475600	Weak transcription	Fetal Kidney	kidney
3	chr1:173458600-173476600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr1:173459400-173475400	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr1:173466400-173475400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr1:173471000-173474200	Enhancers	Liver	Liver
7	chr1:173472800-173474800	Weak transcription	HSMMtube	muscle
8	chr1:173472800-173475400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr1:173473200-173475400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr1:173473200-173475800	Weak transcription	NHLF	lung
11	chr1:173473200-173476200	Weak transcription	Colon Smooth Muscle	Colon
12	chr1:173473200-173476200	Weak transcription	K562	blood
13	chr1:173473200-173476600	Weak transcription	NHDF-Ad	bronchial
14	chr1:173473400-173475600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr1:173473600-173476600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr1:173473800-173474800	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr1:173473800-173475400	Weak transcription	Adipose Nuclei	Adipose
18	chr1:173473800-173475400	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr1:173473800-173475400	Weak transcription	Stomach Mucosa	stomach
20	chr1:173473800-173476600	Enhancers	Hela-S3	cervix
21	chr1:173474000-173474200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr1:173474000-173474200	Enhancers	Fetal Brain Male	brain
23	chr1:173474000-173474200	Weak transcription	Stomach Smooth Muscle	stomach
24	chr1:173474000-173475400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr1:173474000-173476800	Weak transcription	Fetal Brain Female	brain

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