Variant report

Variant	rs61399074
Chromosome Location	chr22:30145673-30145674
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr22:30136102..30138464-chr22:30143800..30146252,2	MCF-7	breast:
2	chr22:30130941..30133818-chr22:30144985..30147499,2	MCF-7	breast:
3	chr22:30139115..30141689-chr22:30143703..30146029,2	K562	blood:
4	chr22:30144553..30146905-chr22:30152166..30154338,3	MCF-7	breast:
5	chr22:30145045..30147687-chr22:30166151..30168873,2	MCF-7	breast:
6	chr22:30142692..30145269-chr22:30145289..30147345,2	K562	blood:
7	chr22:30144477..30147071-chr22:30161090..30163905,2	K562	blood:

Variant related genes	Relation type
ENSG00000100319	Chromatin interaction
ENSG00000184076	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs56783715	0.91[ASN][1000 genomes]
rs57014206	0.91[ASN][1000 genomes]
rs58113244	0.91[ASN][1000 genomes]
rs58808486	1.00[ASN][1000 genomes]
rs59172206	0.91[ASN][1000 genomes]
rs59237579	0.91[ASN][1000 genomes]
rs59422664	0.91[ASN][1000 genomes]
rs59698661	1.00[ASN][1000 genomes]
rs59902813	0.91[ASN][1000 genomes]
rs60020246	0.91[ASN][1000 genomes]
rs6006260	1.00[ASN][1000 genomes]
rs60670183	1.00[ASN][1000 genomes]
rs60751623	0.82[ASN][1000 genomes]
rs60965931	0.91[ASN][1000 genomes]
rs61432554	0.91[ASN][1000 genomes]
rs61740613	0.82[ASN][1000 genomes]
rs7285384	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7288777	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529742	chr22:29677909-30274388	Bivalent Enhancer Enhancers ZNF genes & repeats Strong transcription Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv1064081	chr22:29826745-30623965	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv544677	chr22:29826745-30623965	Weak transcription Bivalent/Poised TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	nsv914964	chr22:30081715-30150549	Bivalent Enhancer Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv515720	chr22:30081715-30163526	Enhancers Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1065072	chr22:30102176-30155245	Strong transcription Weak transcription Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:30123600-30146800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr22:30123600-30147000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr22:30125400-30146200	Weak transcription	NHLF	lung
4	chr22:30130200-30150200	Weak transcription	A549	lung
5	chr22:30130400-30150600	Strong transcription	Fetal Intestine Small	intestine
6	chr22:30130600-30149800	Weak transcription	Psoas Muscle	Psoas
7	chr22:30131000-30145800	Weak transcription	Primary hematopoietic stem cells	blood
8	chr22:30131400-30148600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr22:30131600-30162000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr22:30131800-30147200	Strong transcription	Brain Inferior Temporal Lobe	brain
11	chr22:30134400-30158400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr22:30136000-30154800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr22:30136600-30146600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr22:30136600-30146600	Weak transcription	Fetal Heart	heart
15	chr22:30136600-30146800	Weak transcription	Small Intestine	intestine
16	chr22:30136800-30146600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr22:30139600-30147000	Strong transcription	Stomach Smooth Muscle	stomach
18	chr22:30139800-30146600	Strong transcription	Lung	lung
19	chr22:30141200-30150800	Strong transcription	Fetal Brain Female	brain
20	chr22:30141400-30146600	Strong transcription	Brain Germinal Matrix	brain
21	chr22:30141600-30154200	Weak transcription	Osteobl	bone
22	chr22:30141800-30146600	Strong transcription	Right Ventricle	heart
23	chr22:30141800-30147000	Strong transcription	Fetal Muscle Leg	muscle
24	chr22:30141800-30147000	Weak transcription	HMEC	breast
25	chr22:30141800-30147200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr22:30141800-30155400	Strong transcription	Fetal Stomach	stomach
27	chr22:30142000-30147000	Weak transcription	HepG2	liver
28	chr22:30142000-30150000	Strong transcription	Fetal Muscle Trunk	muscle
29	chr22:30142600-30147400	Strong transcription	Cortex derived primary cultured neurospheres	brain
30	chr22:30142800-30146800	Strong transcription	Rectal Smooth Muscle	rectum
31	chr22:30143600-30147200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr22:30143600-30154200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr22:30143800-30147000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr22:30144000-30147800	Weak transcription	Muscle Satellite Cultured Cells	--
35	chr22:30144200-30146800	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr22:30144200-30146800	Enhancers	Esophagus	oesophagus
37	chr22:30144400-30146200	Weak transcription	Aorta	Aorta
38	chr22:30144400-30146400	Enhancers	Primary neutrophils fromperipheralblood	blood
39	chr22:30144400-30146600	Weak transcription	Fetal Thymus	thymus
40	chr22:30144400-30148400	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr22:30144400-30150000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr22:30144400-30150000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr22:30144400-30161800	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr22:30144400-30162000	Weak transcription	Placenta	Placenta
45	chr22:30144400-30162200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr22:30144600-30145800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr22:30144600-30146000	Weak transcription	Left Ventricle	heart
48	chr22:30144600-30146000	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr22:30144600-30146200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr22:30144600-30146200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links