Variant report

Variant	rs10138606
Chromosome Location	chr14:77842900-77842901
allele	A/G
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	POLR2A	chr14:77842896-77843780	Hela-S3	cervix:	n/a	n/a
2	SIN3A	chr14:77842832-77843985	GM12878	blood:	n/a	n/a
3	HCFC1	chr14:77842896-77844244	Hela-S3	cervix:	n/a	n/a
4	RCOR1	chr14:77841584-77843646	GM12878	blood:	n/a	n/a
5	POLR2A	chr14:77842675-77843712	GM18526	blood:	n/a	n/a
6	ELF1	chr14:77842641-77843987	GM12878	blood:	n/a	chr14:77843232-77843244
7	POLR2A	chr14:77841886-77843811	GM12892	blood:	n/a	n/a
8	POLR2A	chr14:77842668-77843167	HL-60	blood:	n/a	n/a
9	MAX	chr14:77842360-77844251	MCF-7	breast:	n/a	n/a
10	MAX	chr14:77842677-77843870	K562	blood:	n/a	n/a
11	YY1	chr14:77842889-77844068	GM12878	blood:	n/a	chr14:77843155-77843166 chr14:77843402-77843416 chr14:77842893-77842902
12	MTA3	chr14:77842331-77843115	GM12878	blood:	n/a	n/a
13	POLR2A	chr14:77842654-77844001	H1-neurons	neurons:	n/a	n/a
14	POLR2A	chr14:77842891-77843690	GM10847	blood:	n/a	n/a
15	MXI1	chr14:77842441-77843962	GM12878	blood:	n/a	n/a
16	POLR2A	chr14:77842563-77843683	GM12878	blood:	n/a	n/a
17	POLR2A	chr14:77842861-77843876	Hela-S3	cervix:	n/a	n/a
18	EBF1	chr14:77842891-77843218	GM12878	blood:	n/a	n/a
19	POLR2A	chr14:77842542-77843739	GM19193	blood:	n/a	n/a
20	POLR2A	chr14:77842860-77843916	SK-N-SH	brain:	n/a	n/a
21	ZBTB7A	chr14:77842621-77843421	ECC-1	luminal epithelium:	n/a	n/a
22	ELF1	chr14:77842815-77844404	MCF-7	breast:	n/a	chr14:77843232-77843244
23	MXI1	chr14:77841038-77844400	SK-N-SH	brain:	n/a	n/a
24	SIN3AK20	chr14:77842665-77844390	MCF-7	breast:	n/a	n/a
25	ZBTB7A	chr14:77842891-77843490	ECC-1	luminal epithelium:	n/a	n/a
26	REST	chr14:77842330-77844283	H1-neurons	neurons:	n/a	chr14:77842942-77842955 chr14:77842738-77842751 chr14:77843258-77843268 chr14:77843467-77843480 chr14:77843210-77843230 chr14:77843210-77843230 chr14:77843534-77843547 chr14:77843534-77843547
27	POLR2A	chr14:77842802-77843759	GM12892	blood:	n/a	n/a
28	POLR2A	chr14:77842628-77843658	GM15510	blood:	n/a	n/a
29	POLR2A	chr14:77842565-77843929	Raji	blood:	n/a	n/a
30	POLR2A	chr14:77842727-77843619	GM12878	blood:	n/a	n/a
31	POLR2A	chr14:77842692-77843728	GM18505	blood:	n/a	n/a
32	RCOR1	chr14:77842746-77843055	HepG2	liver:	n/a	n/a
33	ELF1	chr14:77842783-77843950	GM12878	blood:	n/a	chr14:77843232-77843244
34	HMGN3	chr14:77842846-77843656	K562	blood:	n/a	n/a
35	CTCF	chr14:77842820-77842970	GM12865	blood:	n/a	chr14:77842884-77842897 chr14:77842889-77842899
36	ZBTB7A	chr14:77842781-77842962	K562	blood:	n/a	n/a
37	MAX	chr14:77842801-77843897	NB4	blood:	n/a	n/a
38	POLR2A	chr14:77842732-77843717	GM18951	blood:	n/a	n/a
39	MAZ	chr14:77842745-77843935	GM12878	blood:	n/a	n/a
40	POLR2A	chr14:77842689-77843015	GM12878	blood:	n/a	n/a
41	POLR2A	chr14:77842604-77843979	H1-neurons	neurons:	n/a	n/a
42	POLR2A	chr14:77842463-77843787	GM19099	blood:	n/a	n/a
43	SIN3A	chr14:77842867-77844077	H1-hESC	embryonic stem cell:	n/a	n/a
44	SMARCB1	chr14:77842737-77843824	Hela-S3	cervix:	n/a	n/a
45	SIN3AK20	chr14:77842858-77843937	H1-hESC	embryonic stem cell:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr14:77841708..77843435-chr14:77931241..77933009,2	K562	blood:
2	chr14:77786039..77790135-chr14:77842733..77846742,6	MCF-7	breast:
3	chr14:77790811..77792920-chr14:77841645..77843708,2	MCF-7	breast:
4	chr14:77841182..77844130-chr14:78173275..78175250,2	MCF-7	breast:
5	chr14:77842121..77845840-chr14:77923685..77925710,4	K562	blood:
6	chr14:77826527..77828604-chr14:77841218..77842967,2	MCF-7	breast:
7	chr14:77785710..77794377-chr14:77836948..77846491,26	MCF-7	breast:
8	chr14:77800138..77802593-chr14:77840615..77842904,2	MCF-7	breast:
9	chr14:77814415..77818794-chr14:77841444..77844447,3	MCF-7	breast:
10	chr14:77841945..77846770-chr14:77921022..77925977,11	MCF-7	breast:
11	chr14:77841845..77843819-chr14:77922794..77925151,2	MCF-7	breast:
12	chr14:77766406..77773210-chr14:77841892..77846481,6	MCF-7	breast:

Variant related genes	Relation type
SAMD15	TF binding region
ENSG00000212371	Chromatin interaction
ENSG00000009830	Chromatin interaction
ENSG00000266628	Chromatin interaction
ENSG00000151445	Chromatin interaction
ENSG00000100577	Chromatin interaction
ENSG00000100601	Chromatin interaction
ENSG00000119705	Chromatin interaction
ENSG00000100591	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10140162	1.00[AMR][1000 genomes]
rs10145195	1.00[AMR][1000 genomes]
rs10147727	1.00[AMR][1000 genomes]
rs10438171	1.00[AMR][1000 genomes]
rs17105786	1.00[AMR][1000 genomes]
rs28587702	1.00[AMR][1000 genomes]
rs28834759	1.00[AMR][1000 genomes]
rs28909971	1.00[AMR][1000 genomes]
rs7141831	1.00[AMR][1000 genomes]
rs877895	1.00[AMR][1000 genomes]
rs994223	1.00[AMR][1000 genomes]
rs9944157	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431017	chr14:76938089-77854647	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	107 gene(s)	inside rSNPs	diseases
2	nsv902107	chr14:77790416-77871777	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:77840600-77844200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr14:77841200-77843000	Flanking Active TSS	Primary B cells from cord blood	blood
3	chr14:77841400-77843000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
4	chr14:77841600-77843200	Flanking Active TSS	Primary hematopoietic stem cells	blood
5	chr14:77841600-77843800	Active TSS	GM12878-XiMat	blood
6	chr14:77841800-77843200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
7	chr14:77841800-77843200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
8	chr14:77842000-77843000	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
9	chr14:77842000-77843000	Flanking Active TSS	Primary T cells from cord blood	blood
10	chr14:77842000-77843000	Flanking Active TSS	Primary T cells fromperipheralblood	blood
11	chr14:77842000-77843000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
12	chr14:77842000-77843000	Flanking Active TSS	Brain Hippocampus Middle	brain
13	chr14:77842000-77843000	Flanking Active TSS	Duodenum Mucosa	Duodenum
14	chr14:77842000-77843800	Active TSS	Osteobl	bone
15	chr14:77842200-77843000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
16	chr14:77842200-77843000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
17	chr14:77842200-77843000	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr14:77842200-77843000	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
19	chr14:77842200-77843000	Flanking Active TSS	Stomach Smooth Muscle	stomach
20	chr14:77842200-77843000	Flanking Active TSS	HUVEC	blood vessel
21	chr14:77842200-77843800	Active TSS	Fetal Brain Female	brain
22	chr14:77842200-77843800	Active TSS	A549	lung
23	chr14:77842200-77844000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr14:77842200-77844000	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
25	chr14:77842200-77844200	Active TSS	ES-I3 Cell Line	embryonic stem cell
26	chr14:77842200-77844200	Active TSS	HUES6 Cell Line	embryonic stem cell
27	chr14:77842200-77844200	Active TSS	iPS-20b Cell Line	embryonic stem cell
28	chr14:77842200-77844200	Active TSS	Right Atrium	heart
29	chr14:77842400-77843000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
30	chr14:77842400-77843000	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr14:77842400-77843000	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
32	chr14:77842400-77843000	Flanking Active TSS	Adipose Nuclei	Adipose
33	chr14:77842400-77843000	Flanking Active TSS	Aorta	Aorta
34	chr14:77842400-77843000	Flanking Active TSS	Colonic Mucosa	Colon
35	chr14:77842400-77843000	Flanking Active TSS	Fetal Muscle Leg	muscle
36	chr14:77842400-77843000	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
37	chr14:77842400-77843800	Active TSS	HUES48 Cell Line	embryonic stem cell
38	chr14:77842400-77843800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr14:77842400-77843800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr14:77842400-77843800	Active TSS	HSMMtube	muscle
41	chr14:77842400-77843800	Active TSS	NHLF	lung
42	chr14:77842400-77844000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr14:77842400-77844000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr14:77842400-77844000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr14:77842400-77844000	Active TSS	Fetal Brain Male	brain
46	chr14:77842400-77844000	Active TSS	Fetal Intestine Large	intestine
47	chr14:77842400-77844000	Active TSS	Pancreatic Islets	Pancreatic Islet
48	chr14:77842400-77844000	Active TSS	Ovary	ovary
49	chr14:77842600-77843000	Flanking Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr14:77842600-77843000	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links