Variant report

Variant	rs1884554
Chromosome Location	chrX:110408185-110408186
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:128)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:128 , 50 per page) page: 1 2 3

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chrX:110408062-110408279	K562	blood:	n/a	n/a
2	CTCF	chrX:110408060-110408210	BJ	skin:	n/a	n/a
3	CTCF	chrX:110408054-110408249	K562	blood:	n/a	n/a
4	CTCF	chrX:110408080-110408230	BE2_C	brain:	n/a	n/a
5	CTCF	chrX:110408095-110408243	Gliobla	brain:	n/a	n/a
6	CTCF	chrX:110408100-110408250	HA-sp	spinal cord:	n/a	n/a
7	CTCF	chrX:110408120-110408270	HCPEpiC	choroid plexus:	n/a	n/a
8	CTCF	chrX:110408080-110408230	WERI-Rb-1	eye:	n/a	n/a
9	CTCF	chrX:110407990-110408343	IMR90	lung:	n/a	n/a
10	CTCF	chrX:110408080-110408230	AG04449	skin:	n/a	n/a
11	CTCF	chrX:110408064-110408239	SK-N-SH_RA	brain:	n/a	n/a
12	CTCF	chrX:110408080-110408230	K562	blood:	n/a	n/a
13	CTCF	chrX:110408084-110408266	LNCaP	prostate:	n/a	n/a
14	CTCF	chrX:110408080-110408230	GM12873	blood:	n/a	n/a
15	CTCF	chrX:110408080-110408230	BJ	skin:	n/a	n/a
16	CTCF	chrX:110408077-110408253	MCF-7	breast:	n/a	n/a
17	CTCF	chrX:110408140-110408290	AG04450	lung:	n/a	n/a
18	ZNF143	chrX:110408039-110408297	GM12878	blood:	n/a	n/a
19	CTCF	chrX:110408080-110408230	GM12875	blood:	n/a	n/a
20	RAD21	chrX:110408044-110408304	H1-hESC	embryonic stem cell:	n/a	n/a
21	CTCF	chrX:110408080-110408230	AG09309	skin:	n/a	n/a
22	CTCF	chrX:110408080-110408230	HEK293	kidney:	n/a	n/a
23	RAD21	chrX:110408032-110408215	GM12878	blood:	n/a	n/a
24	CTCF	chrX:110408068-110408242	HepG2	liver:	n/a	n/a
25	CTCF	chrX:110408100-110408250	HPF	lung:	n/a	n/a
26	RAD21	chrX:110408003-110408349	SK-N-SH_RA	brain:	n/a	n/a
27	CTCF	chrX:110408080-110408230	HMEC	breast:	n/a	n/a
28	CTCF	chrX:110408120-110408270	HPAF	blood vessel:	n/a	n/a
29	CTCF	chrX:110408145-110408222	Lung_OC	lung:	n/a	n/a
30	CTCF	chrX:110408060-110408210	HAc	cerebellar:	n/a	n/a
31	CTCF	chrX:110408080-110408230	AG09319	gingival:	n/a	n/a
32	CTCF	chrX:110408079-110408188	Spleen_OC	spleen:	n/a	n/a
33	CTCF	chrX:110408080-110408230	SK-N-SH_RA	brain:	n/a	n/a
34	CTCF	chrX:110408086-110408313	ProgFib	skin:	n/a	n/a
35	CTCF	chrX:110408040-110408190	AG04450	lung:	n/a	n/a
36	RAD21	chrX:110408007-110408241	SK-N-SH_RA	brain:	n/a	n/a
37	CTCF	chrX:110408060-110408210	HMEC	breast:	n/a	n/a
38	CTCF	chrX:110408060-110408330	A549	lung:	n/a	n/a
39	CTCF	chrX:110408120-110408270	SAEC	small airway:	n/a	n/a
40	CTCF	chrX:110408040-110408190	A549	lung:	n/a	n/a
41	CTCF	chrX:110408080-110408230	HBMEC	blood vessel:	n/a	n/a
42	CTCF	chrX:110408076-110408241	LNCaP	prostate:	n/a	n/a
43	CTCF	chrX:110408116-110408240	NHEK	skin:	n/a	n/a
44	CTCF	chrX:110408100-110408250	GM12869	blood:	n/a	n/a
45	RAD21	chrX:110407796-110408850	SK-N-SH	brain:	n/a	n/a
46	CTCF	chrX:110408100-110408250	AG04449	skin:	n/a	n/a
47	CTCF	chrX:110408080-110408230	MCF-7	breast:	n/a	n/a
48	CTCF	chrX:110408040-110408190	AG10803	skin:	n/a	n/a
49	CTCF	chrX:110408068-110408221	Pancreas_OC	pancreas:	n/a	n/a
50	CTCF	chrX:110408160-110408310	HRE	kidney:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chrX:110407993..110408709-chrX:110487120..110487699,2	MCF-7	breast:
2	chrX:110407226..110408219-chrX:110690311..110690819,2	MCF-7	breast:
3	chrX:110407872..110408407-chrX:110687695..110688340,2	MCF-7	breast:
4	chrX:110407677..110408191-chrX:110688626..110689442,2	MCF-7	breast:

No data

Variant related genes	Relation type
FCF1P4	TF binding region

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

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10521531	1.00[CEU][hapmap]
rs1159650	1.00[CEU][hapmap]
rs12116264	1.00[CEU][hapmap]
rs1339302	1.00[CEU][hapmap]
rs1339303	1.00[CEU][hapmap]
rs1339304	1.00[CEU][hapmap]
rs1361320	1.00[CEU][hapmap]
rs16986368	1.00[CEU][hapmap]
rs16986378	1.00[CEU][hapmap]
rs16986384	1.00[CEU][hapmap]
rs16986385	1.00[CEU][hapmap]
rs1884552	1.00[CEU][hapmap]
rs1884555	1.00[CEU][hapmap]
rs2050750	1.00[CEU][hapmap]
rs2050751	1.00[CEU][hapmap]
rs2066102	1.00[CEU][hapmap]
rs2208017	1.00[CEU][hapmap]
rs2208018	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs2208020	1.00[CEU][hapmap]
rs4341302	1.00[CEU][hapmap]
rs4384152	1.00[CEU][hapmap]
rs4514174	1.00[CEU][hapmap]
rs5942719	1.00[CEU][hapmap]
rs5942720	1.00[CEU][hapmap]
rs5942721	1.00[CEU][hapmap]
rs5943130	1.00[CEU][hapmap]
rs5943132	1.00[CEU][hapmap]
rs5943137	1.00[CEU][hapmap]
rs5985318	1.00[CEU][hapmap]
rs5985586	1.00[CEU][hapmap]
rs5985587	1.00[CEU][hapmap]
rs5985588	1.00[CEU][hapmap]
rs5985590	1.00[CEU][hapmap]
rs6642857	1.00[CEU][hapmap]
rs6642860	1.00[CEU][hapmap]
rs6642862	1.00[CEU][hapmap]
rs6642870	1.00[CEU][hapmap]
rs7879757	1.00[CEU][hapmap]
rs7881798	1.00[CEU][hapmap]
rs994591	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532899	chrX:110117241-110419226	Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv3337751	chrX:110217889-110429181	Enhancers Active TSS Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv869661	chrX:110337762-111084262	Enhancers Transcr. at gene 5' and 3' Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:110351800-110419400	Weak transcription	Pancreas	Pancrea
2	chrX:110385200-110424200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chrX:110406600-110424800	Weak transcription	Brain Germinal Matrix	brain
4	chrX:110407200-110412600	Weak transcription	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links