Variant report

Variant	rs6964297
Chromosome Location	chr7:129301726-129301727
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	chr7:129301627..129303933-chr7:129464656..129467241,2	K562	blood:
2	chr7:129300901..129303855-chr7:129648023..129650206,2	K562	blood:

Variant related genes	Relation type
ENSG00000244036	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10225103	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.82[TSI][hapmap];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10227655	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10235960	0.80[ASN][1000 genomes]
rs10267039	0.85[ASW][hapmap];0.81[CEU][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs10268267	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10271270	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10275661	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.91[TSI][hapmap];0.96[YRI][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10277673	0.81[CEU][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs10278897	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.91[TSI][hapmap];0.96[YRI][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11763880	0.81[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs11773536	0.85[JPT][hapmap]
rs12538553	0.93[ASW][hapmap];0.81[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12666356	0.85[JPT][hapmap]
rs12669389	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13438321	0.92[ASW][hapmap];0.88[CHD][hapmap];0.84[GIH][hapmap];0.86[JPT][hapmap];0.81[LWK][hapmap];0.87[MKK][hapmap];0.95[TSI][hapmap];0.91[YRI][hapmap]
rs2402962	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2402970	0.85[ASW][hapmap];0.81[CEU][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs2402976	0.91[YRI][hapmap]
rs28805656	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34300097	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4469397	1.00[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.90[MKK][hapmap];0.96[YRI][hapmap];0.88[ASN][1000 genomes]
rs4504577	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6949152	0.81[CEU][hapmap];0.86[GIH][hapmap]
rs6962005	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6978860	0.85[ASW][hapmap];0.81[CEU][hapmap];0.94[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs73721766	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73721770	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7783235	0.84[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7787121	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7790595	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7806603	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3477492	chr7:129298416-129304014	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	esv3359315	chr7:129298866-129303114	Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv3395322	chr7:129299366-129303064	Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv3500340	chr7:129299408-129302495	ZNF genes & repeats Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv3500342	chr7:129299827-129302146	ZNF genes & repeats Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	esv3500343	chr7:129299827-129302146	ZNF genes & repeats Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv3441886	chr7:129299973-129302102	Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	esv3477491	chr7:129300004-129302116	Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	esv3477493	chr7:129300004-129302116	ZNF genes & repeats Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6964297	KLF14	cis	cerebellum	SCAN

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:129283800-129331600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr7:129286800-129304400	Weak transcription	NHLF	lung
3	chr7:129289200-129314000	Weak transcription	Fetal Brain Male	brain
4	chr7:129290000-129325800	Weak transcription	Stomach Mucosa	stomach
5	chr7:129290400-129304600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr7:129293800-129311200	Weak transcription	Brain Anterior Caudate	brain
7	chr7:129293800-129311400	Weak transcription	Brain Angular Gyrus	brain
8	chr7:129297000-129302200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr7:129297000-129302200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr7:129297000-129302200	Strong transcription	Rectal Mucosa Donor 31	rectum
11	chr7:129297200-129301800	Strong transcription	Adipose Nuclei	Adipose
12	chr7:129297200-129302000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr7:129297200-129302000	Strong transcription	Rectal Mucosa Donor 29	rectum
14	chr7:129297200-129302200	Strong transcription	Primary T helper naive cells from peripheral blood	blood
15	chr7:129297200-129302200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr7:129297200-129302200	Strong transcription	Stomach Smooth Muscle	stomach
17	chr7:129297200-129302400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
18	chr7:129297200-129302600	ZNF genes & repeats	Dnd41	blood
19	chr7:129297200-129303200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr7:129297400-129302000	Strong transcription	Rectal Smooth Muscle	rectum
21	chr7:129297600-129302600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr7:129297800-129349800	Weak transcription	Small Intestine	intestine
23	chr7:129298000-129304400	Weak transcription	NHDF-Ad	bronchial
24	chr7:129298200-129302200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
25	chr7:129298200-129302600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
26	chr7:129298600-129302200	ZNF genes & repeats	Thymus	Thymus
27	chr7:129298600-129309800	Weak transcription	Fetal Heart	heart
28	chr7:129299000-129303400	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
29	chr7:129299200-129302000	ZNF genes & repeats	Brain Germinal Matrix	brain
30	chr7:129299200-129302200	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
31	chr7:129299200-129302200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr7:129299200-129302400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr7:129299200-129302400	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
34	chr7:129299200-129302600	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr7:129299400-129301800	Strong transcription	Brain Inferior Temporal Lobe	brain
36	chr7:129299400-129302000	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr7:129299400-129302000	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
38	chr7:129299400-129302000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
39	chr7:129299400-129302200	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr7:129299400-129302200	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
41	chr7:129299400-129302200	ZNF genes & repeats	A549	lung
42	chr7:129299400-129302400	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
43	chr7:129299400-129302400	ZNF genes & repeats	Fetal Muscle Leg	muscle
44	chr7:129299400-129302400	ZNF genes & repeats	GM12878-XiMat	blood
45	chr7:129299400-129302600	ZNF genes & repeats	iPS-15b Cell Line	embryonic stem cell
46	chr7:129299400-129302600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr7:129299400-129302600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
48	chr7:129299600-129302000	ZNF genes & repeats	Fetal Thymus	thymus
49	chr7:129299600-129302200	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
50	chr7:129299600-129302200	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland

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