Variant report

Variant	rs35370743
Chromosome Location	chr4:106604190-106604191
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:21)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:21 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA3	chr4:106603935-106604818	MCF-7	breast:	n/a	n/a
2	HDAC2	chr4:106604155-106604619	MCF-7	breast:	n/a	chr4:106604477-106604491 chr4:106604485-106604494
3	SIN3AK20	chr4:106603958-106604669	MCF-7	breast:	n/a	n/a
4	ELF1	chr4:106603944-106604771	MCF-7	breast:	n/a	n/a
5	SIN3AK20	chr4:106603937-106604750	MCF-7	breast:	n/a	n/a
6	NFIC	chr4:106603933-106604775	ECC-1	luminal epithelium:	n/a	n/a
7	TCF12	chr4:106603956-106604641	ECC-1	luminal epithelium:	n/a	n/a
8	TCF12	chr4:106604087-106604628	ECC-1	luminal epithelium:	n/a	n/a
9	NR2F2	chr4:106604013-106604652	MCF-7	breast:	n/a	n/a
10	EP300	chr4:106604126-106604667	MCF-7	breast:	n/a	n/a
11	ELF1	chr4:106604050-106604671	MCF-7	breast:	n/a	n/a
12	EP300	chr4:106604070-106604585	T-47D	breast:	n/a	n/a
13	EP300	chr4:106603970-106604595	ECC-1	luminal epithelium:	n/a	n/a
14	GATA3	chr4:106604044-106604678	MCF-7	breast:	n/a	n/a
15	CEBPB	chr4:106604145-106604637	MCF-7	breast:	n/a	n/a
16	TEAD4	chr4:106604097-106604638	ECC-1	luminal epithelium:	n/a	n/a
17	TEAD4	chr4:106604137-106604673	ECC-1	luminal epithelium:	n/a	n/a
18	HDAC2	chr4:106604059-106604603	MCF-7	breast:	n/a	chr4:106604477-106604491 chr4:106604485-106604494
19	NFIC	chr4:106604052-106604721	ECC-1	luminal epithelium:	n/a	n/a
20	ZNF217	chr4:106603878-106604711	MCF-7	breast:	n/a	n/a
21	JUND	chr4:106604125-106604689	MCF-7	breast:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:106602488..106605475-chr4:106815984..106818192,2	MCF-7	breast:
2	chr4:106604077..106605882-chr4:106608212..106610998,2	MCF-7	breast:
3	chr4:106603548..106605395-chr4:106627300..106628891,2	K562	blood:
4	chr4:106554040..106554637-chr4:106603968..106604587,2	MCF-7	breast:
5	chr4:105887751..105889540-chr4:106602331..106605002,2	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ARHGEF38-1	chr4:106604079-106604203	NONHSAT097684

No data

Variant related genes	Relation type
ENSG00000248778	TF binding region
ENSG00000138785	Chromatin interaction
ENSG00000248242	Chromatin interaction
ENSG00000168743	Chromatin interaction

Extended variants
information (count: 162 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:161)

rs_ID	r²[population]
rs10050159	0.83[EUR][1000 genomes]
rs10050333	0.83[EUR][1000 genomes]
rs10516525	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10516526	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10516527	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10516528	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10516529	0.81[EUR][1000 genomes]
rs11097901	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11722225	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11723225	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11723240	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11723639	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11724839	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11724884	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11726094	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11726124	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11726569	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11726674	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11727189	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11727348	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11727500	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11727735	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11727745	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11728044	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11728716	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11728918	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11729003	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11730354	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11730365	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11730660	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11731386	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11731417	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11731714	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11731938	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11732298	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11732629	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11732650	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11733093	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11733124	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11733150	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11733223	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11733225	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11733287	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11733654	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11734568	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11734571	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11735527	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11735851	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11736834	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11736859	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11737335	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11737741	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12374256	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17035960	0.84[AMR][1000 genomes]
rs17035971	0.84[AMR][1000 genomes]
rs17036027	0.84[AMR][1000 genomes]
rs17036052	0.84[AMR][1000 genomes]
rs17036066	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17036090	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17036105	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17036120	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17036123	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17036125	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17036129	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17036139	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17036142	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17036156	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17036177	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17036189	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17036225	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17036230	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17036258	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17036292	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17036308	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17036310	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17036327	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17036341	0.81[EUR][1000 genomes]
rs17331332	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28488297	0.83[EUR][1000 genomes]
rs34072732	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35808787	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4373160	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58775257	0.81[EUR][1000 genomes]
rs67277942	0.81[EUR][1000 genomes]
rs72669974	0.84[AMR][1000 genomes]
rs72669978	0.84[AMR][1000 genomes]
rs72669980	0.84[AMR][1000 genomes]
rs72669981	0.84[AMR][1000 genomes]
rs72669992	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs72669993	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72669995	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72669997	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72669998	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72670002	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72671805	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671808	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671809	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671810	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671811	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671815	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671820	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671824	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671826	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671828	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671835	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671836	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671837	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671840	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671844	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671849	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671852	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671853	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72671854	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671855	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671856	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671858	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671861	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671862	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671863	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671866	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671869	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671870	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671871	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671873	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671874	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671878	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671879	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671880	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671881	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671885	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671886	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671889	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671892	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671895	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671896	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72673803	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72673805	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72673811	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72673812	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72673813	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72673817	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72673821	0.85[AMR][1000 genomes]
rs72673822	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72673823	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72673824	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72673828	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72673831	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72673832	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72673834	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72673853	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72673855	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72673858	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72673860	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72673865	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72673870	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72673872	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72673873	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72673888	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72673889	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72673891	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7676975	0.83[EUR][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	nsv879699	chr4:106212562-106698892	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs35370743	INTS12	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106578600-106607000	Weak transcription	Small Intestine	intestine
2	chr4:106580400-106613200	Weak transcription	Fetal Intestine Small	intestine
3	chr4:106587800-106629000	Weak transcription	Lung	lung
4	chr4:106597000-106610000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr4:106598600-106613000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr4:106599000-106614400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr4:106599200-106613800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr4:106600400-106628600	Weak transcription	Colonic Mucosa	Colon
9	chr4:106600600-106628400	Weak transcription	Stomach Mucosa	stomach
10	chr4:106601200-106607000	Weak transcription	Stomach Smooth Muscle	stomach
11	chr4:106601200-106609600	Weak transcription	Brain Cingulate Gyrus	brain
12	chr4:106601200-106628400	Weak transcription	Psoas Muscle	Psoas
13	chr4:106601600-106607000	Weak transcription	Brain Hippocampus Middle	brain
14	chr4:106601600-106609200	Weak transcription	A549	lung
15	chr4:106601800-106612600	Weak transcription	Fetal Brain Female	brain
16	chr4:106602000-106604200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr4:106602000-106618600	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr4:106602200-106621600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr4:106602200-106629200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr4:106602400-106610800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr4:106602400-106613200	Weak transcription	Fetal Stomach	stomach
22	chr4:106602400-106615400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr4:106602400-106618400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr4:106602400-106621600	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr4:106602400-106628600	Weak transcription	Right Ventricle	heart
26	chr4:106602600-106604400	Strong transcription	Fetal Intestine Large	intestine
27	chr4:106602600-106604600	Strong transcription	Fetal Thymus	thymus
28	chr4:106602600-106607800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr4:106602600-106608200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr4:106602600-106609200	Weak transcription	Fetal Brain Male	brain
31	chr4:106602600-106609200	Weak transcription	K562	blood
32	chr4:106602600-106609600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr4:106602600-106610600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr4:106602600-106611200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr4:106602600-106611600	Strong transcription	Adipose Nuclei	Adipose
36	chr4:106602600-106614000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
37	chr4:106602600-106614000	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr4:106602600-106620800	Strong transcription	Primary T helper cells fromperipheralblood	blood
39	chr4:106602600-106621200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr4:106602600-106621800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr4:106602600-106622200	Strong transcription	Monocytes-CD14+_RO01746	blood
42	chr4:106602600-106628400	Weak transcription	Fetal Heart	heart
43	chr4:106602600-106629200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr4:106602800-106604400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
45	chr4:106602800-106604400	Strong transcription	Duodenum Mucosa	Duodenum
46	chr4:106602800-106607000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
47	chr4:106602800-106607600	Strong transcription	Duodenum Smooth Muscle	Duodenum
48	chr4:106602800-106608200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr4:106602800-106612000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr4:106602800-106614400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links