Variant report

Variant	rs58427887
Chromosome Location	chr9:100820671-100820672
allele	C/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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:100820519..100823041-chr9:100848922..100851897,2	K562	blood:
2	chr9:100744471..100747062-chr9:100817673..100820807,4	MCF-7	breast:
3	chr9:100817834..100821135-chr9:100954026..100958556,6	MCF-7	breast:
4	chr9:100682922..100687440-chr9:100817123..100820939,8	MCF-7	breast:
5	chr9:100819269..100820857-chr9:100828451..100830322,2	K562	blood:
6	chr9:100793900..100798932-chr9:100816820..100821233,8	MCF-7	breast:
7	chr9:100742340..100750312-chr9:100816953..100823782,17	MCF-7	breast:
8	chr9:100817802..100822153-chr9:100831375..100837110,8	MCF-7	breast:
9	chr9:100818822..100821185-chr9:101017013..101019589,2	MCF-7	breast:
10	chr9:100819004..100820789-chr9:100854136..100855949,2	K562	blood:
11	chr9:100817775..100822653-chr9:100832609..100840095,16	MCF-7	breast:
12	chr9:100743079..100747890-chr9:100817276..100822371,7	K562	blood:
13	chr9:100705974..100707868-chr9:100818803..100821487,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000095383	Chromatin interaction
ENSG00000095380	Chromatin interaction
ENSG00000106785	Chromatin interaction
ENSG00000136929	Chromatin interaction
ENSG00000106789	Chromatin interaction
ENSG00000136938	Chromatin interaction
ENSG00000136932	Chromatin interaction
ENSG00000212521	Chromatin interaction
ENSG00000236896	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1059273	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12554583	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16912622	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2224773	0.88[ASN][1000 genomes]
rs2281732	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3739670	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4300105	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4394518	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4562446	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4742716	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4743157	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4743158	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743159	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55978131	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6478539	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6478556	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7020081	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7034147	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7038592	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7041811	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7046514	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7846772	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7846880	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7848430	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7862535	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7867404	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7869762	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];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	nsv482635	chr9:100775549-100953239	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs58427887	TRIM14	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100818200-100821000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr9:100818400-100820800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr9:100818400-100820800	Active TSS	Psoas Muscle	Psoas
4	chr9:100818400-100820800	Active TSS	Sigmoid Colon	Sigmoid Colon
5	chr9:100818400-100820800	Active TSS	Small Intestine	intestine
6	chr9:100818400-100820800	Active TSS	NHLF	lung
7	chr9:100818400-100821200	Active TSS	Colonic Mucosa	Colon
8	chr9:100818600-100820800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr9:100818600-100820800	Active TSS	HSMMtube	muscle
10	chr9:100819200-100821200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr9:100819600-100821000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
12	chr9:100819600-100821200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
13	chr9:100819600-100821200	Enhancers	Spleen	Spleen
14	chr9:100819600-100821200	Flanking Active TSS	Osteobl	bone
15	chr9:100819600-100848400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr9:100820000-100820800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
17	chr9:100820000-100820800	Weak transcription	Esophagus	oesophagus
18	chr9:100820000-100820800	Weak transcription	Gastric	stomach
19	chr9:100820000-100820800	Active TSS	Rectal Mucosa Donor 31	rectum
20	chr9:100820000-100821000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
21	chr9:100820000-100821000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
22	chr9:100820000-100821000	Enhancers	Primary T killer memory cells from peripheral blood	blood
23	chr9:100820000-100821000	Enhancers	Liver	Liver
24	chr9:100820000-100821000	Enhancers	Colon Smooth Muscle	Colon
25	chr9:100820000-100821000	Enhancers	Fetal Heart	heart
26	chr9:100820000-100821200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
27	chr9:100820000-100821200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
28	chr9:100820000-100821200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
29	chr9:100820000-100821200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
30	chr9:100820000-100821200	Enhancers	Placenta	Placenta
31	chr9:100820000-100821200	Active TSS	Rectal Smooth Muscle	rectum
32	chr9:100820000-100821200	Enhancers	Skeletal Muscle Female	skeletal muscle
33	chr9:100820000-100821400	Enhancers	Primary T helper naive cells from peripheral blood	blood
34	chr9:100820000-100821400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
35	chr9:100820000-100822000	Enhancers	Primary T cells fromperipheralblood	blood
36	chr9:100820000-100822800	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr9:100820000-100823000	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr9:100820000-100823000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr9:100820000-100823000	Weak transcription	Brain Cingulate Gyrus	brain
40	chr9:100820000-100823000	Weak transcription	Fetal Muscle Leg	muscle
41	chr9:100820000-100823000	Weak transcription	Left Ventricle	heart
42	chr9:100820000-100823000	Weak transcription	Lung	lung
43	chr9:100820000-100823200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr9:100820000-100823200	Weak transcription	Aorta	Aorta
45	chr9:100820000-100823200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr9:100820000-100823200	Weak transcription	Ovary	ovary
47	chr9:100820000-100824200	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr9:100820000-100826800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr9:100820000-100826800	Weak transcription	Cortex derived primary cultured neurospheres	brain
50	chr9:100820000-100828400	Weak transcription	Brain Inferior Temporal Lobe	brain

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