Variant report

Variant	rs17268589
Chromosome Location	chr13:96435951-96435952
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:96431368..96434044-chr13:96435858..96438220,2	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12855856	1.00[ASN][1000 genomes]
rs12865249	1.00[ASN][1000 genomes]
rs12873384	1.00[AFR][1000 genomes]
rs17268596	1.00[AFR][1000 genomes]
rs34755300	1.00[ASN][1000 genomes]
rs35188520	1.00[ASN][1000 genomes]
rs35513205	1.00[ASN][1000 genomes]
rs35574277	1.00[ASN][1000 genomes]
rs71433091	1.00[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	nsv832690	chr13:96330757-96508077	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17268589	CCL1	trans	lymphoblastoid	seeQTL

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96367600-96436000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr13:96394400-96438400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr13:96398400-96436200	Weak transcription	Colon Smooth Muscle	Colon
4	chr13:96398400-96439400	Weak transcription	Brain Hippocampus Middle	brain
5	chr13:96404000-96439400	Weak transcription	Thymus	Thymus
6	chr13:96405400-96436800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr13:96405400-96439400	Weak transcription	Brain Cingulate Gyrus	brain
8	chr13:96405400-96452600	Weak transcription	Psoas Muscle	Psoas
9	chr13:96405600-96455800	Weak transcription	Fetal Heart	heart
10	chr13:96406600-96436000	Weak transcription	NHLF	lung
11	chr13:96407200-96439400	Weak transcription	Brain Anterior Caudate	brain
12	chr13:96408400-96443600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr13:96408600-96443200	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr13:96408600-96445400	Weak transcription	K562	blood
15	chr13:96410400-96436200	Weak transcription	Aorta	Aorta
16	chr13:96411400-96439400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr13:96412000-96443400	Weak transcription	Colonic Mucosa	Colon
18	chr13:96413200-96439800	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr13:96414000-96436600	Weak transcription	Rectal Smooth Muscle	rectum
20	chr13:96414000-96443400	Weak transcription	Brain Angular Gyrus	brain
21	chr13:96414400-96443400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr13:96415600-96439400	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr13:96416200-96436400	Weak transcription	HSMMtube	muscle
24	chr13:96416200-96439200	Weak transcription	Brain Substantia Nigra	brain
25	chr13:96416200-96439200	Weak transcription	Fetal Muscle Trunk	muscle
26	chr13:96416200-96443400	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr13:96416200-96445400	Weak transcription	Fetal Kidney	kidney
28	chr13:96416400-96440000	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr13:96416400-96440200	Weak transcription	HepG2	liver
30	chr13:96416800-96436200	Weak transcription	Placenta	Placenta
31	chr13:96417600-96436000	Weak transcription	NH-A	brain
32	chr13:96417600-96438400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr13:96417600-96439400	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr13:96417600-96439400	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr13:96417800-96436000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr13:96418800-96436200	Weak transcription	HMEC	breast
37	chr13:96422200-96440600	Weak transcription	Fetal Lung	lung
38	chr13:96422400-96439400	Weak transcription	Small Intestine	intestine
39	chr13:96423800-96436000	Weak transcription	HSMM	muscle
40	chr13:96423800-96439600	Weak transcription	Esophagus	oesophagus
41	chr13:96429400-96438000	Weak transcription	Primary B cells from peripheral blood	blood
42	chr13:96429600-96436000	Weak transcription	Muscle Satellite Cultured Cells	--
43	chr13:96429600-96444200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
44	chr13:96430000-96457400	Weak transcription	Brain Germinal Matrix	brain
45	chr13:96430800-96436000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr13:96430800-96436200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr13:96431000-96436200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr13:96431000-96438400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr13:96431000-96439400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr13:96431200-96436400	Weak transcription	Duodenum Smooth Muscle	Duodenum

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