Variant report

Variant	rs13002884
Chromosome Location	chr2:10027669-10027670
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:10025374..10028699-chr2:10030128..10032449,3	MCF-7	breast:
2	chr2:9949069..9951498-chr2:10025282..10028550,3	MCF-7	breast:
3	chr2:10027283..10029259-chr2:10030456..10033188,2	K562	blood:

Extended variants
information (count: 48 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1022312	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10495576	0.81[CEU][hapmap]
rs1054561	0.84[CEU][hapmap]
rs1054565	0.81[CEU][hapmap]
rs11686239	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11691885	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12185679	0.81[CEU][hapmap]
rs12468764	0.80[CEU][hapmap]
rs12479251	0.81[CEU][hapmap]
rs12614753	0.81[CEU][hapmap]
rs12615461	0.81[CEU][hapmap]
rs12617033	0.81[CEU][hapmap]
rs12621371	0.84[CEU][hapmap]
rs12991584	0.81[CEU][hapmap]
rs12995394	0.84[CEU][hapmap]
rs1367385	0.84[CEU][hapmap];0.96[YRI][hapmap]
rs16867210	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap]
rs16867226	0.84[CEU][hapmap]
rs1835426	0.81[CEU][hapmap]
rs1965411	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2163337	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap]
rs2241665	0.81[CEU][hapmap]
rs2245344	0.91[YRI][hapmap]
rs2303914	0.83[YRI][hapmap]
rs34577787	0.80[CEU][hapmap]
rs372222	0.81[CEU][hapmap]
rs3815977	0.81[CEU][hapmap]
rs445742	0.81[CEU][hapmap]
rs450085	0.81[CEU][hapmap]
rs4668650	0.81[CEU][hapmap]
rs4668654	0.80[CEU][hapmap]
rs4669490	0.84[CEU][hapmap]
rs4669492	0.84[CEU][hapmap]
rs4669493	0.84[CEU][hapmap]
rs514905	0.81[CEU][hapmap]
rs6432041	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap]
rs6707887	0.84[CEU][hapmap]
rs6742427	0.81[CEU][hapmap];0.88[YRI][hapmap]
rs6748720	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6759700	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948591	chr2:9922257-10141191	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
2	nsv873630	chr2:9953949-10030024	Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	25 gene(s)	inside rSNPs	diseases
3	nsv873631	chr2:9975557-10059770	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	21 gene(s)	inside rSNPs	diseases
4	esv1843231	chr2:9979766-10141191	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
5	nsv580960	chr2:9993451-10066694	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1011125	chr2:9996740-10293803	Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
7	nsv873632	chr2:10000978-10045014	Enhancers ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv1011689	chr2:10023891-10293803	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13002884	TAF1B	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:9987200-10038400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr2:9993800-10079600	Weak transcription	Gastric	stomach
3	chr2:9995800-10038000	Weak transcription	Small Intestine	intestine
4	chr2:9998200-10035600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr2:9998800-10032200	Weak transcription	Fetal Heart	heart
6	chr2:9998800-10036400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr2:9999000-10035800	Weak transcription	Brain Hippocampus Middle	brain
8	chr2:9999000-10035800	Weak transcription	Brain Substantia Nigra	brain
9	chr2:9999000-10037000	Weak transcription	Brain Cingulate Gyrus	brain
10	chr2:9999000-10037200	Weak transcription	Colon Smooth Muscle	Colon
11	chr2:9999200-10036200	Weak transcription	Brain Angular Gyrus	brain
12	chr2:9999200-10036400	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr2:9999200-10053800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr2:10008200-10028000	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr2:10014800-10045400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr2:10015000-10036200	Weak transcription	Fetal Kidney	kidney
17	chr2:10017600-10036200	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr2:10017800-10073000	Weak transcription	Right Ventricle	heart
19	chr2:10018400-10035600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr2:10018800-10036200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr2:10019000-10036000	Weak transcription	Stomach Mucosa	stomach
22	chr2:10019800-10037200	Weak transcription	HUVEC	blood vessel
23	chr2:10020200-10029800	Weak transcription	HSMMtube	muscle
24	chr2:10020200-10032200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr2:10020400-10028400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr2:10020400-10037400	Weak transcription	K562	blood
27	chr2:10020800-10029000	Weak transcription	HepG2	liver
28	chr2:10021800-10028200	Strong transcription	Primary monocytes fromperipheralblood	blood
29	chr2:10021800-10029200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr2:10022800-10028200	Strong transcription	Primary T helper cells fromperipheralblood	blood
31	chr2:10023800-10035000	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr2:10023800-10035800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr2:10024200-10030000	Weak transcription	Aorta	Aorta
34	chr2:10024400-10034800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr2:10024400-10036000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr2:10024400-10037600	Weak transcription	Psoas Muscle	Psoas
37	chr2:10024400-10053800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr2:10024600-10027800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr2:10024600-10036400	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr2:10024600-10037600	Weak transcription	Pancreas	Pancrea
41	chr2:10024800-10036200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
42	chr2:10024800-10036400	Weak transcription	Rectal Smooth Muscle	rectum
43	chr2:10024800-10047600	Weak transcription	Rectal Mucosa Donor 29	rectum
44	chr2:10024800-10051400	Weak transcription	Duodenum Mucosa	Duodenum
45	chr2:10025000-10027800	Weak transcription	Brain Germinal Matrix	brain
46	chr2:10025000-10030200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr2:10025000-10031600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr2:10025000-10032200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
49	chr2:10025000-10036200	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr2:10025000-10047000	Weak transcription	Thymus	Thymus

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