exRNAdisease

General Information

Database ID:

exR0083565

RNA Name:

TRIM28

RNA Type:

mRNA

Chromosome:

chr19

Starnd:

Coordinate:

Start Site(bp):

58544064

End Site(bp):

58550722

External Links:

Disease Information

Disease Name:	Fragile X Syndrome
Disease Category:	Congenital, Hereditary, and Neonatal Diseases and Abnormalities
MeSH ID:	D005600
Type:	Diseases Category/Congenital, Hereditary, and Neonatal Diseases and Abnormalities
Alias:	Fragile X Syndromes//Syndrome, Fragile X//Syndromes, Fragile X//Marker X Syndrome//Marker X Syndromes//Syndrome, Marker X//Syndromes, Marker X//Mental Retardation, X-Linked, Associated With Marxq28//X-Linked Mental Retardation and Macroorchidism//X Linked Mental Retardation and Macroorchidism//Fragile X Mental Retardation Syndrome//Martin-Bell Syndrome//Martin Bell Syndrome//Syndrome, Martin-Bell//Fra(X) Syndrome//FRAXE Syndrome//FRAXE Syndromes//Syndrome, FRAXE//Syndromes, FRAXE//Mental Retardation, X-Linked, Associated With Fragile Site Fraxe//Fragile X-F Mental Retardation Syndrome//Mar (X) Syndrome//FRAXA Syndrome//FRAXA Syndromes//Syndrome, FRAXA//Syndromes, FRAXA

Expression Detail

GEO ID:	GSE83556
Description:	Global transcriptome dysregulation in second trimester fetuses with FMR1 expansions
Experimental Design:	Disease vs Control
Case Disease Type:	Fragile X Syndrome
Case Disease SubType:	NA
Case Sample:	Fragile X Syndrome
Control Sample:	Normal
Number of Case:	22
Number of Control:	18
Number of Samples:	40

Regulatory Relationship

mRNA targets:

Gene Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
ABHD14A-ACY1	chr3	51974706	51989183	+
AC005258.1	chr19	2269525	2341172	+
AC007192.1	chr19	18153158	18178117	+
AC008982.1	chr19	38817471	38840178	-
AC010422.3	chr19	12643831	12648397	-
AC092647.5	chr7	55887277	55955239	+
AC118553.2	chr1	99970011	100083321	+
AC129492.3	chr17	8150816	8162975	-
AC138811.2	chr16	18788063	18801519	-
AC245033.1	chr15	82536788	82573194	-
ACBD6	chr1	180269653	180502954	-
ACLY	chr17	41866917	41930542	-
ACTB	chr7	5527148	5563784	-
ACTG1	chr17	81509971	81523847	-
ACTR1A	chr10	102461881	102502712	-
ACTR3C	chr7	150243916	150323725	-
ACY1	chr3	51983340	51989197	+
ADAM10	chr15	58588809	58749791	-
ADAR	chr1	154582057	154628013	-
ADD1	chr4	2843857	2930076	+
ADSL	chr22	40346500	40390463	+
AHCY	chr20	34280268	34311802	-
AHDC1	chr1	27534035	27604431	-
AIDA	chr1	222668013	222713210	-
AK2	chr1	33007940	33080996	-
AKAP12	chr6	151239967	151358559	+
AKR1A1	chr1	45550543	45570049	+
AL121758.1	chr20	646626	675800	-
AL136295.5	chr14	24147548	24166452	+
ALDOA	chr16	30064164	30070457	+

miRNA targets:

miRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
hsa-miR-6807-5p	chr19	58550285	58550306	+
hsa-miR-6807-3p	chr19	58550354	58550376	+

circRNA targets:

lncRNA targets:

lncRNA Symbol	Chromosome	Start Site(bp)	End Site(bp)	Strand
AC060780.1	chr17	43148368	43171037	-
AC069281.2	chr7	100572232	100578700	-
AC109460.3	chr16	28974804	28990775	+
AD000090.1	chr19	35557956	35581954	+
AL022311.1	chr22	37876148	37895563	+
AL117378.1	chr6	131901963	131920565	+

Display:

Experiment Detail

GEO ID:	GSE83556
Sample Source:	Amniotic Fluid
Source Fraction:	Supernatant
Platform:	GPL570
Method:	Microarray
Num of detected RNA Type:	1
Num of detected RNAs of this Type:	17063
Sample treatment protocol:	RNA was extracted from 5-15 mL amniotic fluid supernatant (centrifugation at 350g, 4C, 10, min).
RNA Extract protocol:	All samples were processed using the Qiagen Circulating Nucleic Acid kit with an on-column DNase digestion step to remove genomic DNA. The RNA was then purified and concentrated with the RNeasy MinElute Clean up kit and eluted in RNasefree water.
RNA library preparation protocol:	RNA was converted to cDNA and amplified using the Ovation Pico WTA kit V2 and then purified with the QIAquick PCR Purification kit. Samples were labeled using the Encore Biotin Module (NuGEN, San Carlos, CA)Samples were labeled using the Encore Biotin Module (NuGEN, San Carlos, CA).

Reference