Variant report

Variant	rs3885828
Chromosome Location	chr6:30132670-30132671
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	USF2	chr6:30132665-30132690	HepG2	liver:	n/a	n/a
2	POLR2A	chr6:30132587-30132762	HepG2	liver:	n/a	n/a
3	E2F6	chr6:30132607-30132767	K562	blood:	n/a	n/a
4	MYC	chr6:30132661-30132719	HepG2	liver:	n/a	n/a
5	MAX	chr6:30132505-30132814	K562	blood:	n/a	chr6:30132711-30132721
6	TEAD4	chr6:30132246-30132693	K562	blood:	n/a	n/a
7	USF1	chr6:30132591-30132830	HepG2	liver:	n/a	chr6:30132710-30132721
8	USF1	chr6:30132553-30132798	K562	blood:	n/a	chr6:30132710-30132721
9	MAX	chr6:30132630-30132683	NB4	blood:	n/a	n/a
10	USF1	chr6:30132589-30132786	HepG2	liver:	n/a	chr6:30132710-30132721
11	MAX	chr6:30132284-30132972	HepG2	liver:	n/a	chr6:30132711-30132721
12	MYBL2	chr6:30131840-30132705	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
TRIM10	TF binding region
TRIM15	TF binding region

rs_ID	r²[population]
rs17188212	0.88[ASN][1000 genomes]
rs17194523	1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17194565	0.88[ASN][1000 genomes]
rs4711210	0.96[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4713290	0.81[ASN][1000 genomes]
rs4713297	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4713298	1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4713302	0.82[ASN][1000 genomes]
rs57686281	0.82[ASN][1000 genomes]

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30130200-30133000	Active TSS	Colonic Mucosa	Colon
2	chr6:30130400-30132800	Active TSS	Rectal Mucosa Donor 29	rectum
3	chr6:30131000-30132800	Active TSS	Rectal Smooth Muscle	rectum
4	chr6:30131200-30134200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr6:30131400-30132800	Active TSS	Duodenum Smooth Muscle	Duodenum
6	chr6:30131400-30132800	Active TSS	Sigmoid Colon	Sigmoid Colon
7	chr6:30131400-30132800	Enhancers	K562	blood
8	chr6:30131400-30134800	Weak transcription	Primary hematopoietic stem cells	blood
9	chr6:30131400-30134800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr6:30131400-30134800	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr6:30131600-30132800	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr6:30131800-30132800	Transcr. at gene 5' and 3'	Fetal Intestine Small	intestine
13	chr6:30132000-30132800	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
14	chr6:30132000-30133000	Active TSS	Fetal Intestine Large	intestine
15	chr6:30132000-30133800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr6:30132200-30132800	Enhancers	Stomach Mucosa	stomach
17	chr6:30132400-30132800	Flanking Active TSS	Duodenum Mucosa	Duodenum
18	chr6:30132400-30132800	Flanking Bivalent TSS/Enh	HepG2	liver
19	chr6:30132400-30133000	Enhancers	Liver	Liver
20	chr6:30132600-30132800	Bivalent/Poised TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr6:30132600-30134800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr6:30132600-30134800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links