HsaINT0032830 @ hg19
Intron Retention
Gene
ENSG00000241322 | CDRT1
Description
CMT1A duplicated region transcript 1 [Source:HGNC Symbol;Acc:14379]
Coordinates
chr17:15516929-15517347:-
Coord C1 exon
chr17:15517147-15517347
Coord A exon
chr17:15517057-15517146
Coord C2 exon
chr17:15516929-15517056
Length
90 bp
Sequences
Splice sites
5' ss Seq
TAAGTATGC
5' ss Score
2.72
3' ss Seq
CATCTTTTTTTTTTTTCCAGGAA
3' ss Score
11.66
Exon sequences
Seq C1 exon
AGGAACCATGGAGGAATTCACTCCGGTGTATATCCGAAATGAATAGGCTGTTTTCTGGAAAAGCAGACATAACCAAGCCAGGGTACGATCCCTGCAATCTATTGGTTGACCTGGATGACATCAGAGACCTGTCTTCTGGGTTCAGCAAATACCGAGACTTCATCCGTTACCTGCCCATCCACCTCTCCAAGTACATTCTAA
Seq A exon
GTATGCTGGGGTGTATGAGGGGATTTCCCAGACACCTCCCCTCTTGGCCCAGTTCTGGGGTTTCTGGGTCCATCTTTTTTTTTTTTCCAG
Seq C2 exon
GAATGCTGGATAGACACACCCTGAACAAGTGCGCCTCTGTGAGCCAGCACTGGGCCGCCATGGCTCAACAGGTCAAGATGGACTTGTCAGCGCACGGCTTCATTCAGAACCAGATTACCTTCTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000241322-CDRT1:NM_006382:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064628=F-box=PU(31.8=20.6)
A:
NA
C2:
PF0064628=F-box=PD(65.9=67.4)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTGTCTTCTGGGTTCAGCA
R:
GTGCGCTGACAAGTCCATCTT
Band lengths:
170-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)