Variant report

Variant	rs2403880
Chromosome Location	chr21:16512155-16512156
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr21:16435217..16437812-chr21:16511090..16513658,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000180530	Chromatin interaction

rs_ID	r²[population]
rs2254223	0.81[ASN][1000 genomes]
rs28662134	0.91[EUR][1000 genomes]
rs61121249	0.86[EUR][1000 genomes]
rs62218213	0.81[EUR][1000 genomes]
rs62218214	0.83[EUR][1000 genomes]
rs8134766	0.81[EUR][1000 genomes]
rs9983032	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:16506600-16512600	Weak transcription	Left Ventricle	heart
2	chr21:16507600-16513800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr21:16508000-16514600	Enhancers	Primary hematopoietic stem cells	blood
4	chr21:16509200-16512600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr21:16509200-16512600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr21:16509400-16514600	Enhancers	Fetal Muscle Leg	muscle
7	chr21:16509800-16514600	Enhancers	Fetal Intestine Small	intestine
8	chr21:16509800-16514800	Enhancers	Fetal Intestine Large	intestine
9	chr21:16510000-16512400	Enhancers	Small Intestine	intestine
10	chr21:16510000-16513600	Enhancers	Rectal Mucosa Donor 31	rectum
11	chr21:16510000-16513800	Enhancers	Skeletal Muscle Male	skeletal muscle
12	chr21:16510000-16514400	Enhancers	Brain Germinal Matrix	brain
13	chr21:16510200-16513000	Enhancers	Stomach Mucosa	stomach
14	chr21:16510200-16513600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr21:16510200-16514600	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr21:16510400-16512200	Enhancers	HepG2	liver
17	chr21:16510400-16513600	Enhancers	Fetal Brain Male	brain
18	chr21:16510600-16512200	Enhancers	Liver	Liver
19	chr21:16510800-16512400	Enhancers	Sigmoid Colon	Sigmoid Colon
20	chr21:16510800-16513200	Enhancers	Fetal Stomach	stomach
21	chr21:16510800-16513200	Enhancers	Psoas Muscle	Psoas
22	chr21:16510800-16513800	Enhancers	Colonic Mucosa	Colon
23	chr21:16510800-16514400	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr21:16511000-16512200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr21:16511000-16512200	Weak transcription	Pancreatic Islets	Pancreatic Islet
26	chr21:16511000-16512800	Weak transcription	Right Atrium	heart
27	chr21:16511000-16513600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr21:16511200-16512400	Weak transcription	Brain Hippocampus Middle	brain
29	chr21:16511200-16512400	Enhancers	Duodenum Mucosa	Duodenum
30	chr21:16511200-16512400	Weak transcription	Gastric	stomach
31	chr21:16511200-16512600	Weak transcription	Fetal Muscle Trunk	muscle
32	chr21:16511200-16512600	Weak transcription	Ovary	ovary
33	chr21:16511200-16514000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr21:16511200-16514000	Weak transcription	Esophagus	oesophagus
35	chr21:16511200-16514000	Enhancers	Skeletal Muscle Female	skeletal muscle
36	chr21:16511200-16516200	Weak transcription	Adipose Nuclei	Adipose
37	chr21:16511400-16512200	Enhancers	A549	lung
38	chr21:16511400-16512400	Weak transcription	Brain Substantia Nigra	brain
39	chr21:16511400-16512600	Enhancers	Rectal Mucosa Donor 29	rectum
40	chr21:16511400-16513800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr21:16511600-16512200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr21:16511600-16512800	Weak transcription	Primary monocytes fromperipheralblood	blood
43	chr21:16511800-16512200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr21:16511800-16512600	Weak transcription	Brain Anterior Caudate	brain
45	chr21:16511800-16512800	Weak transcription	Fetal Brain Female	brain
46	chr21:16511800-16512800	Weak transcription	Monocytes-CD14+_RO01746	blood
47	chr21:16511800-16513200	Enhancers	Fetal Lung	lung
48	chr21:16512000-16512400	Weak transcription	Brain Cingulate Gyrus	brain
49	chr21:16512000-16512400	Weak transcription	Pancreas	Pancrea
50	chr21:16512000-16514400	Enhancers	Fetal Kidney	kidney

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links