Variant report

Variant	rs41274380
Chromosome Location	chr9:96209259-96209260
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:17)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:3)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:17 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr9:96209146-96209441	K562	blood:	n/a	n/a
2	POLR2A	chr9:96208964-96209562	Hela-S3	cervix:	n/a	n/a
3	POLR2A	chr9:96208875-96209284	HepG2	liver:	n/a	n/a
4	POLR2A	chr9:96209028-96209686	K562	blood:	n/a	n/a
5	POLR2A	chr9:96206607-96209614	K562	blood:	n/a	n/a
6	POLR2A	chr9:96209036-96209509	K562	blood:	n/a	n/a
7	POLR2A	chr9:96209075-96209573	GM12892	blood:	n/a	n/a
8	POLR2A	chr9:96209238-96209471	MCF-7	breast:	n/a	n/a
9	POLR2A	chr9:96207164-96209866	GM12891	blood:	n/a	n/a
10	POLR2A	chr9:96209153-96209461	Hela-S3	cervix:	n/a	n/a
11	POLR2A	chr9:96209052-96209531	GM12878	blood:	n/a	n/a
12	POLR2A	chr9:96209167-96209484	K562	blood:	n/a	n/a
13	POLR2A	chr9:96209131-96209514	MCF10A-Er-Src	breast:	n/a	n/a
14	POLR2A	chr9:96209249-96209611	A549	lung:	n/a	n/a
15	POLR2A	chr9:96208877-96209827	HepG2	liver:	n/a	n/a
16	POLR2A	chr9:96209088-96209497	HepG2	liver:	n/a	n/a
17	POLR2A	chr9:96208962-96209649	GM12878	blood:	n/a	n/a

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:96073849..96077900-chr9:96206718..96209805,3	MCF-7	breast:
2	chr9:96107572..96110035-chr9:96206115..96209435,3	MCF-7	breast:
3	chr9:96201330..96203280-chr9:96208013..96210414,3	K562	blood:
4	chr9:96208657..96210806-chr9:96328635..96330636,2	K562	blood:
5	chr9:96142516..96144205-chr9:96208172..96210030,2	MCF-7	breast:
6	chr9:96208752..96211539-chr9:96294912..96297639,2	MCF-7	breast:
7	chr9:96204959..96207648-chr9:96208494..96210984,2	K562	blood:
8	chr9:96207153..96210037-chr9:96334442..96336797,2	MCF-7	breast:
9	chr9:96176229..96178407-chr9:96208987..96210556,2	MCF-7	breast:

(count:3 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM120AOS-3	chr9:96209187-96209979	NONHSAT133259
2	lnc-FAM120AOS-3	chr9:96209206-96209979	NONHSAT133261
3	lnc-FAM120AOS-3	chr9:96209187-96209979	NONHSAT133260

No data

Variant related genes	Relation type
FAM120A	TF binding region
ENSG00000165238	Chromatin interaction
ENSG00000204352	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10115890	0.94[EUR][1000 genomes]
rs10119044	0.94[EUR][1000 genomes]
rs10119048	0.94[EUR][1000 genomes]
rs10120391	0.94[EUR][1000 genomes]
rs10121801	0.94[EUR][1000 genomes]
rs10992730	0.94[EUR][1000 genomes]
rs12345304	0.94[EUR][1000 genomes]
rs12345623	0.94[EUR][1000 genomes]
rs16909145	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16909167	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16909202	1.00[EUR][1000 genomes]
rs16909214	1.00[EUR][1000 genomes]
rs16909308	1.00[AMR][1000 genomes]
rs2001587	1.00[AMR][1000 genomes]
rs2001588	1.00[AMR][1000 genomes]
rs2398854	1.00[AMR][1000 genomes]
rs35505758	1.00[AMR][1000 genomes]
rs41274382	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41274392	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41274394	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41274432	1.00[AMR][1000 genomes]
rs60016166	1.00[AMR][1000 genomes]
rs6479486	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7020585	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7027881	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7030805	1.00[AMR][1000 genomes]
rs7031483	1.00[EUR][1000 genomes]
rs7035026	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73522240	1.00[AMR][1000 genomes]
rs73522243	1.00[AMR][1000 genomes]
rs73522271	1.00[AMR][1000 genomes]
rs73522273	1.00[AMR][1000 genomes]
rs73522292	1.00[AMR][1000 genomes]
rs73522296	1.00[AMR][1000 genomes]
rs73651207	0.94[EUR][1000 genomes]
rs73651208	0.94[EUR][1000 genomes]
rs7849843	0.94[EUR][1000 genomes]
rs7864950	0.94[EUR][1000 genomes]
rs7867699	0.94[EUR][1000 genomes]
rs7868092	0.94[EUR][1000 genomes]
rs7870558	1.00[AMR][1000 genomes]
rs7873803	1.00[EUR][1000 genomes]
rs7875378	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96196800-96209600	Weak transcription	Psoas Muscle	Psoas
2	chr9:96197000-96212400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr9:96198000-96212600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr9:96206800-96209800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr9:96206800-96210200	Weak transcription	Ovary	ovary
6	chr9:96207000-96211400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr9:96207400-96210600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr9:96207400-96211000	Strong transcription	Liver	Liver
9	chr9:96207400-96211600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
10	chr9:96207400-96212200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr9:96207400-96212400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr9:96207600-96210000	Strong transcription	Primary T helper cells PMA-I stimulated	--
13	chr9:96207600-96210200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr9:96207600-96210600	Strong transcription	Primary T cells from cord blood	blood
15	chr9:96207600-96211000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr9:96207600-96211000	Strong transcription	Dnd41	blood
17	chr9:96207600-96211400	Strong transcription	Primary neutrophils fromperipheralblood	blood
18	chr9:96207600-96211800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr9:96207600-96211800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr9:96207600-96211800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr9:96207600-96212200	Strong transcription	HUES64 Cell Line	embryonic stem cell
22	chr9:96207600-96212200	Strong transcription	Fetal Thymus	thymus
23	chr9:96207800-96210800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
24	chr9:96207800-96210800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr9:96207800-96210800	Strong transcription	Thymus	Thymus
26	chr9:96207800-96210800	Strong transcription	GM12878-XiMat	blood
27	chr9:96207800-96211800	Strong transcription	Rectal Mucosa Donor 29	rectum
28	chr9:96207800-96212200	Strong transcription	Fetal Stomach	stomach
29	chr9:96208000-96209600	Weak transcription	Right Ventricle	heart
30	chr9:96208000-96210400	Strong transcription	Primary hematopoietic stem cells	blood
31	chr9:96208000-96210400	Strong transcription	HSMMtube	muscle
32	chr9:96208000-96210400	Strong transcription	NHDF-Ad	bronchial
33	chr9:96208000-96210600	Strong transcription	Stomach Smooth Muscle	stomach
34	chr9:96208000-96210800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr9:96208000-96210800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr9:96208000-96211000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr9:96208000-96211000	Strong transcription	Cortex derived primary cultured neurospheres	brain
38	chr9:96208000-96211600	Strong transcription	Fetal Intestine Large	intestine
39	chr9:96208000-96211600	Strong transcription	Monocytes-CD14+_RO01746	blood
40	chr9:96208000-96211800	Strong transcription	Primary B cells from peripheral blood	blood
41	chr9:96208000-96211800	Weak transcription	Fetal Brain Male	brain
42	chr9:96208000-96212000	Strong transcription	Primary monocytes fromperipheralblood	blood
43	chr9:96208000-96212000	Strong transcription	Primary B cells from cord blood	blood
44	chr9:96208000-96212200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr9:96208000-96212200	Strong transcription	Skeletal Muscle Female	skeletal muscle
46	chr9:96208200-96209800	Strong transcription	Primary T helper cells fromperipheralblood	blood
47	chr9:96208200-96210200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
48	chr9:96208200-96210200	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr9:96208200-96210400	Strong transcription	Brain Hippocampus Middle	brain
50	chr9:96208200-96210400	Strong transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links