Variant report

Variant	rs35321033
Chromosome Location	chr2:98327812-98327813
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CEBPD	chr2:98327346-98327835	K562	blood:	n/a	n/a
2	RCOR1	chr2:98327807-98328276	K562	blood:	n/a	n/a
3	TCF12	chr2:98327334-98327819	SK-N-SH	brain:	n/a	n/a
4	GATA3	chr2:98327201-98328023	SK-N-SH	brain:	n/a	chr2:98327601-98327611 chr2:98327601-98327609 chr2:98327206-98327214 chr2:98327693-98327703 chr2:98327602-98327611 chr2:98327602-98327609
5	GATA3	chr2:98327167-98328198	MCF-7	breast:	n/a	chr2:98327601-98327611 chr2:98327601-98327609 chr2:98327206-98327214 chr2:98327693-98327703 chr2:98327602-98327611 chr2:98327602-98327609
6	EGR1	chr2:98327686-98327992	K562	blood:	n/a	chr2:98327693-98327702
7	PBX3	chr2:98327484-98327886	SK-N-SH	brain:	n/a	n/a
8	TCF7L2	chr2:98327529-98328008	Hela-S3	cervix:	n/a	n/a
9	TEAD4	chr2:98327487-98327834	MCF-7	breast:	n/a	n/a
10	SIN3AK20	chr2:98327192-98328020	MCF-7	breast:	n/a	n/a
11	GATA3	chr2:98327379-98327893	SH-SY5Y	brain:	n/a	chr2:98327601-98327611 chr2:98327601-98327609 chr2:98327693-98327703 chr2:98327602-98327611 chr2:98327602-98327609
12	GATA3	chr2:98327246-98328138	MCF-7	breast:	n/a	chr2:98327601-98327611 chr2:98327601-98327609 chr2:98327693-98327703 chr2:98327602-98327611 chr2:98327602-98327609
13	GATA2	chr2:98327285-98327964	SH-SY5Y	brain:	n/a	chr2:98327601-98327611 chr2:98327597-98327611 chr2:98327693-98327703 chr2:98327602-98327611 chr2:98327602-98327609
14	GATA3	chr2:98327445-98327824	MCF-7	breast:	n/a	chr2:98327601-98327611 chr2:98327601-98327609 chr2:98327693-98327703 chr2:98327602-98327611 chr2:98327602-98327609
15	GATA3	chr2:98327245-98328006	SK-N-SH	brain:	n/a	chr2:98327601-98327611 chr2:98327601-98327609 chr2:98327693-98327703 chr2:98327602-98327611 chr2:98327602-98327609
16	FOXM1	chr2:98327319-98327897	MCF-7	breast:	n/a	n/a
17	GATA1	chr2:98326974-98328227	K562	blood:	n/a	chr2:98327601-98327611 chr2:98327206-98327214 chr2:98327693-98327703 chr2:98327602-98327611 chr2:98327602-98327609
18	MYC	chr2:98327209-98328063	K562	blood:	n/a	chr2:98327905-98327912 chr2:98327904-98327913
19	GATA3	chr2:98327360-98327840	T-47D	breast:	n/a	chr2:98327601-98327611 chr2:98327601-98327609 chr2:98327693-98327703 chr2:98327602-98327611 chr2:98327602-98327609
20	ZBTB7A	chr2:98327657-98327886	K562	blood:	n/a	n/a
21	GATA3	chr2:98327472-98327864	T-47D	breast:	n/a	chr2:98327601-98327611 chr2:98327601-98327609 chr2:98327693-98327703 chr2:98327602-98327611 chr2:98327602-98327609
22	TCF7L2	chr2:98327362-98327987	MCF-7	breast:	n/a	n/a
23	GATA3	chr2:98327321-98327972	MCF-7	breast:	n/a	chr2:98327601-98327611 chr2:98327601-98327609 chr2:98327693-98327703 chr2:98327602-98327611 chr2:98327602-98327609
24	ZNF217	chr2:98327472-98328125	MCF-7	breast:	n/a	n/a
25	TCF12	chr2:98327385-98328002	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr2:98321801..98323323-chr2:98325143..98328007,2	MCF-7	breast:
2	chr2:98326109..98328548-chr2:98356181..98358918,2	MCF-7	breast:
3	chr2:98319886..98321866-chr2:98325501..98328367,2	K562	blood:
4	chr2:98326491..98329371-chr2:98358007..98360980,3	MCF-7	breast:
5	chr2:98326581..98329549-chr2:98337971..98340144,2	MCF-7	breast:
6	chr2:98327141..98329201-chr2:98354402..98356223,2	K562	blood:

Variant related genes	Relation type
ZAP70	TF binding region

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12999616	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17028771	1.00[ASN][1000 genomes]
rs17695937	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2071038	1.00[ASN][1000 genomes]
rs2290123	1.00[ASN][1000 genomes]
rs2290126	0.94[ASN][1000 genomes]
rs2290127	1.00[ASN][1000 genomes]
rs34459720	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35530168	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35958372	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs55757705	1.00[ASN][1000 genomes]
rs55766309	1.00[ASN][1000 genomes]
rs55933640	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56035334	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56233535	1.00[ASN][1000 genomes]
rs56717024	1.00[ASN][1000 genomes]
rs58321192	0.94[ASN][1000 genomes]
rs58383658	0.86[ASN][1000 genomes]
rs59021370	0.94[ASN][1000 genomes]
rs59060391	0.94[ASN][1000 genomes]
rs59168350	1.00[ASN][1000 genomes]
rs62157581	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6542982	1.00[ASN][1000 genomes]
rs6753752	1.00[ASN][1000 genomes]
rs72951131	0.94[ASN][1000 genomes]
rs7425883	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757819	chr2:97571109-98336507	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	64 gene(s)	inside rSNPs	diseases
2	esv2759077	chr2:97571109-98336507	Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	64 gene(s)	inside rSNPs	diseases
3	nsv531382	chr2:98250628-98457616	Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
4	nsv874696	chr2:98309882-98362907	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	esv33510	chr2:98317103-98341302	Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:98324600-98329200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr2:98324600-98329400	Enhancers	K562	blood
3	chr2:98325400-98329000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr2:98325400-98329400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr2:98326000-98329400	Enhancers	Primary T killer memory cells from peripheral blood	blood
6	chr2:98326200-98328200	Enhancers	Placenta	Placenta
7	chr2:98326200-98329000	Enhancers	Primary T cells fromperipheralblood	blood
8	chr2:98326200-98329000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr2:98326200-98329000	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr2:98326200-98329000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
11	chr2:98326200-98329000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
12	chr2:98326200-98329200	Enhancers	Primary T cells from cord blood	blood
13	chr2:98326200-98329200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
14	chr2:98326200-98329200	Enhancers	Primary T helper naive cells from peripheral blood	blood
15	chr2:98326200-98329200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
16	chr2:98326200-98329200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
17	chr2:98326200-98329200	Enhancers	Fetal Thymus	thymus
18	chr2:98326200-98329400	Enhancers	Primary T helper cells fromperipheralblood	blood
19	chr2:98326200-98329400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
20	chr2:98326200-98333000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr2:98326400-98329000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr2:98326600-98329000	Enhancers	Dnd41	blood
23	chr2:98326600-98329600	Enhancers	Thymus	Thymus
24	chr2:98326800-98329000	Weak transcription	Fetal Muscle Leg	muscle
25	chr2:98326800-98329400	Weak transcription	Primary B cells from peripheral blood	blood
26	chr2:98327000-98329800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr2:98327000-98330800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr2:98327200-98328000	Enhancers	Fetal Muscle Trunk	muscle
29	chr2:98327200-98328200	Enhancers	Placenta Amnion	Placenta Amnion
30	chr2:98327400-98328000	Enhancers	Breast Myoepithelial Primary Cells	Breast
31	chr2:98327400-98328400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
32	chr2:98327400-98328400	Enhancers	HUES6 Cell Line	embryonic stem cell
33	chr2:98327600-98328800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr2:98327600-98329000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr2:98327600-98330200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr2:98327800-98329200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links