Variant report

Variant	rs235369
Chromosome Location	chr21:46209980-46209981
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr21:46137717..46139381-chr21:46208284..46211097,2	MCF-7	breast:
2	chr21:46208115..46211415-chr21:46211594..46214545,4	MCF-7	breast:
3	chr21:46188637..46191346-chr21:46209977..46212870,2	MCF-7	breast:
4	chr21:46199620..46201400-chr21:46208147..46210925,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1060564	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11569	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs180317	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs183518	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs184633	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2329902	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs235267	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs235268	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs235269	0.96[ASN][1000 genomes]
rs235270	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs235271	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs235272	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs235275	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs235337	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs235352	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs235353	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs235358	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs235360	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs235361	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2838695	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3788134	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs434608	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs657730	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs658657	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs660385	0.82[ASN][1000 genomes]
rs690626	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7280306	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs84188	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916258	chr21:45995986-46624705	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	102 gene(s)	inside rSNPs	diseases
2	nsv913956	chr21:46096964-46279505	Enhancers Bivalent Enhancer Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv1062245	chr21:46096964-46332587	Active TSS Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	nsv544478	chr21:46096964-46332587	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs235369	UBE2G2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:46187000-46213000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr21:46189000-46221000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr21:46193400-46212600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr21:46193800-46212800	Weak transcription	Psoas Muscle	Psoas
5	chr21:46195000-46211200	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr21:46195000-46212600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr21:46195000-46219800	Weak transcription	Small Intestine	intestine
8	chr21:46195400-46220400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr21:46195600-46211400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr21:46196000-46211800	Weak transcription	NHLF	lung
11	chr21:46197200-46213000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr21:46197200-46220400	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr21:46197400-46212800	Weak transcription	Brain Cingulate Gyrus	brain
14	chr21:46198600-46212000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr21:46198800-46211400	Weak transcription	HUVEC	blood vessel
16	chr21:46198800-46213000	Weak transcription	Brain Angular Gyrus	brain
17	chr21:46198800-46219600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr21:46198800-46220000	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr21:46198800-46220000	Weak transcription	Fetal Kidney	kidney
20	chr21:46200000-46220400	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr21:46200400-46212800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr21:46200400-46218200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr21:46200600-46212800	Weak transcription	Colon Smooth Muscle	Colon
24	chr21:46201200-46220400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr21:46201400-46211200	Weak transcription	Colonic Mucosa	Colon
26	chr21:46201600-46212600	Weak transcription	Gastric	stomach
27	chr21:46201600-46212800	Weak transcription	Right Atrium	heart
28	chr21:46201600-46212800	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr21:46202400-46219200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr21:46203400-46220000	Weak transcription	Fetal Brain Female	brain
31	chr21:46204000-46212600	Weak transcription	Ovary	ovary
32	chr21:46204800-46211200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr21:46205000-46211600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr21:46205200-46210400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr21:46205200-46211200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr21:46205200-46212000	Weak transcription	Rectal Smooth Muscle	rectum
37	chr21:46205200-46212200	Weak transcription	Spleen	Spleen
38	chr21:46205200-46213000	Weak transcription	Brain Substantia Nigra	brain
39	chr21:46205200-46213000	Weak transcription	Left Ventricle	heart
40	chr21:46205200-46213200	Weak transcription	Esophagus	oesophagus
41	chr21:46205200-46220400	Weak transcription	Aorta	Aorta
42	chr21:46205200-46220800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr21:46205400-46212800	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr21:46205600-46211800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
45	chr21:46205600-46212600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
46	chr21:46205800-46211600	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr21:46205800-46212800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr21:46206200-46210000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr21:46206200-46212600	Weak transcription	Fetal Heart	heart
50	chr21:46206200-46212600	Weak transcription	Skeletal Muscle Female	skeletal muscle

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