Variant report

Variant	rs6969507
Chromosome Location	chr7:25197667-25197668
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:25197179..25199490-chr7:25204602..25207355,2	K562	blood:
2	chr7:25165601..25167698-chr7:25197250..25199791,2	K562	blood:
3	chr7:25163202..25166310-chr7:25196151..25198757,4	K562	blood:
4	chr7:25164105..25166213-chr7:25197321..25201047,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000172115	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10272108	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11768325	0.85[AFR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12673428	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17150951	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2523079	1.00[CEU][hapmap];0.84[CHB][hapmap];0.93[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2523083	0.84[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2523085	0.84[CHB][hapmap];0.93[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2523087	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2717872	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2717879	0.82[EUR][1000 genomes]
rs4629755	0.93[JPT][hapmap];0.82[YRI][hapmap];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62451611	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62451624	0.98[ASN][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	nsv606424	chr7:24982529-25466521	Genic enhancers Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6969507	CYCS	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:25165400-25209800	Weak transcription	Spleen	Spleen
2	chr7:25165600-25213000	Weak transcription	Small Intestine	intestine
3	chr7:25165600-25218800	Weak transcription	Colonic Mucosa	Colon
4	chr7:25165600-25219200	Weak transcription	Left Ventricle	heart
5	chr7:25165800-25200400	Weak transcription	Fetal Kidney	kidney
6	chr7:25165800-25219000	Weak transcription	Fetal Lung	lung
7	chr7:25166000-25218800	Weak transcription	Brain Anterior Caudate	brain
8	chr7:25168000-25206800	Weak transcription	Fetal Intestine Small	intestine
9	chr7:25168000-25218800	Weak transcription	Gastric	stomach
10	chr7:25172400-25218800	Weak transcription	GM12878-XiMat	blood
11	chr7:25172600-25198600	Weak transcription	Dnd41	blood
12	chr7:25172600-25218600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr7:25179800-25218800	Weak transcription	Pancreas	Pancrea
14	chr7:25185000-25197800	Weak transcription	Brain Substantia Nigra	brain
15	chr7:25186200-25206800	Weak transcription	Stomach Mucosa	stomach
16	chr7:25186600-25200200	Weak transcription	Right Ventricle	heart
17	chr7:25188800-25198200	Weak transcription	K562	blood
18	chr7:25188800-25207000	Weak transcription	Liver	Liver
19	chr7:25189800-25198800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr7:25189800-25207000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr7:25190000-25218800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr7:25190200-25219000	Weak transcription	Stomach Smooth Muscle	stomach
23	chr7:25191200-25199200	Strong transcription	Primary B cells from peripheral blood	blood
24	chr7:25191800-25209400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr7:25192200-25218800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr7:25192200-25218800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr7:25192400-25204000	Weak transcription	Fetal Muscle Trunk	muscle
28	chr7:25193800-25206600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr7:25194200-25200600	Weak transcription	Brain Hippocampus Middle	brain
30	chr7:25194200-25205000	Weak transcription	Adipose Nuclei	Adipose
31	chr7:25194200-25206800	Weak transcription	Primary B cells from cord blood	blood
32	chr7:25194200-25207200	Weak transcription	Rectal Smooth Muscle	rectum
33	chr7:25194200-25209000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr7:25194400-25208400	Weak transcription	Fetal Muscle Leg	muscle
35	chr7:25194400-25219000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr7:25194600-25198600	Weak transcription	Primary T helper cells PMA-I stimulated	--
37	chr7:25194600-25206400	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr7:25194800-25198800	Weak transcription	Fetal Intestine Large	intestine
39	chr7:25194800-25202600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr7:25194800-25203200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
41	chr7:25194800-25203200	Weak transcription	Aorta	Aorta
42	chr7:25194800-25203200	Weak transcription	Monocytes-CD14+_RO01746	blood
43	chr7:25194800-25205200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr7:25194800-25205200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr7:25194800-25205200	Weak transcription	Lung	lung
46	chr7:25194800-25210000	Weak transcription	Fetal Stomach	stomach
47	chr7:25194800-25212800	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr7:25194800-25218800	Weak transcription	Primary T cells fromperipheralblood	blood
49	chr7:25194800-25218800	Weak transcription	Thymus	Thymus
50	chr7:25194800-25219200	Weak transcription	Ovary	ovary

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