Variant report

Variant	rs28709366
Chromosome Location	chr16:71494761-71494762
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:4)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:4 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MXI1	chr16:71494733-71494803	GM12878	blood:	n/a	n/a
2	POLR2A	chr16:71493796-71495101	U87	brain:	n/a	n/a
3	POLR2A	chr16:71493790-71496486	U87	brain:	n/a	n/a
4	POLR2A	chr16:71494156-71496500	IMR90	lung:	n/a	n/a

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr16:71485371..71491957-chr16:71492064..71497509,13	K562	blood:
2	chr16:71494034..71497645-chr16:71516569..71520102,12	K562	blood:
3	chr16:71463484..71466764-chr16:71493078..71496827,4	MCF-7	breast:
4	chr11:120106275..120108882-chr16:71494675..71496479,2	MCF-7	breast:
5	chr16:71490751..71498047-chr16:71514421..71521729,20	MCF-7	breast:
6	chr16:71322248..71324099-chr16:71492926..71495428,2	K562	blood:
7	chr16:71493295..71494894-chr16:71504109..71506023,2	MCF-7	breast:
8	chr16:71492931..71495476-chr16:71534966..71536593,2	K562	blood:
9	chr16:71492243..71500079-chr16:71512817..71521299,31	MCF-7	breast:
10	chr16:71487978..71492259-chr16:71492827..71496747,5	K562	blood:
11	chr16:71492651..71498511-chr16:71515020..71523604,17	K562	blood:
12	chr16:71477364..71480165-chr16:71494025..71496473,2	K562	blood:
13	chr16:71482210..71487712-chr16:71492894..71496267,8	K562	blood:
14	chr16:71494529..71496069-chr16:71521336..71523844,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000247324	TF binding region
ZNF23	TF binding region
ENSG00000260734	Chromatin interaction
ENSG00000262008	Chromatin interaction
ENSG00000180917	Chromatin interaction
ENSG00000137709	Chromatin interaction
ENSG00000167377	Chromatin interaction
ENSG00000261611	Chromatin interaction
ENSG00000157429	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10438561	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13333851	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13336790	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13339307	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13339390	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28537877	0.84[AFR][1000 genomes]
rs28620690	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73573696	0.80[AFR][1000 genomes]
rs9923065	0.83[AMR][1000 genomes]
rs9927819	0.89[AFR][1000 genomes]
rs9930279	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9930642	0.82[AFR][1000 genomes]
rs9933647	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9940204	0.80[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949461	chr16:71196153-71579711	ZNF genes & repeats Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:71484600-71495200	Weak transcription	Fetal Heart	heart
2	chr16:71484600-71495400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr16:71487200-71495400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr16:71487200-71495400	Weak transcription	Stomach Mucosa	stomach
5	chr16:71487600-71494800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr16:71487600-71494800	Weak transcription	K562	blood
7	chr16:71487800-71494800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr16:71488000-71494800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr16:71488000-71495000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr16:71488000-71495400	Weak transcription	Fetal Thymus	thymus
11	chr16:71488200-71495400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr16:71488600-71495400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr16:71489000-71495000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr16:71489000-71495400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr16:71489200-71495200	Weak transcription	Thymus	Thymus
16	chr16:71489400-71495200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr16:71489600-71495400	Weak transcription	Small Intestine	intestine
18	chr16:71489800-71495400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr16:71490200-71494800	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr16:71490200-71495200	Weak transcription	Fetal Kidney	kidney
21	chr16:71490400-71494800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr16:71490400-71495200	Weak transcription	Primary hematopoietic stem cells	blood
23	chr16:71490400-71495400	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr16:71490400-71495400	Weak transcription	Placenta	Placenta
25	chr16:71490600-71494800	Weak transcription	Primary T cells from cord blood	blood
26	chr16:71490600-71495000	Weak transcription	Primary B cells from peripheral blood	blood
27	chr16:71490600-71495000	Weak transcription	Right Ventricle	heart
28	chr16:71490600-71495200	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr16:71490600-71495200	Weak transcription	Brain Angular Gyrus	brain
30	chr16:71490600-71495200	Weak transcription	Brain Cingulate Gyrus	brain
31	chr16:71490600-71495200	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr16:71490600-71495400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr16:71490600-71495400	Weak transcription	Colonic Mucosa	Colon
34	chr16:71490600-71495400	Weak transcription	Pancreas	Pancrea
35	chr16:71490600-71495400	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr16:71490800-71494800	Weak transcription	HUES6 Cell Line	embryonic stem cell
37	chr16:71490800-71494800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr16:71490800-71494800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr16:71490800-71494800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr16:71490800-71494800	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr16:71490800-71494800	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr16:71490800-71494800	Weak transcription	Brain Substantia Nigra	brain
43	chr16:71490800-71494800	Weak transcription	Rectal Smooth Muscle	rectum
44	chr16:71490800-71494800	Weak transcription	Skeletal Muscle Male	skeletal muscle
45	chr16:71490800-71495000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr16:71490800-71495000	Weak transcription	Brain Anterior Caudate	brain
47	chr16:71490800-71495000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr16:71490800-71495000	Weak transcription	Fetal Intestine Small	intestine
49	chr16:71490800-71495000	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr16:71490800-71495200	Weak transcription	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links