HsaINT0032827 @ hg19
Intron Retention
Gene
ENSG00000241322 | CDRT1
Description
CMT1A duplicated region transcript 1 [Source:HGNC Symbol;Acc:14379]
Coordinates
chr17:15496651-15498204:-
Coord C1 exon
chr17:15498062-15498204
Coord A exon
chr17:15496810-15498061
Coord C2 exon
chr17:15496651-15496809
Length
1252 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGT
5' ss Score
7.33
3' ss Seq
GCTACTCTGTTCCCTTCCAGAGA
3' ss Score
8.64
Exon sequences
Seq C1 exon
ACTCTCAGTGGCCACGAGGGAGCTGTGAAATGCCTGTTCTTTGACCAGTGGCATCTCCTCTCAGGAAGCACTGATGGCCTGGTCATGGCCTGGAGCATGGTGGGGAAGTACGAGCGCTGCCTGATGGCCTTCAAGCATCCCAA
Seq A exon
GTAGGTGCCTGTGAAGCCCGGAGCGATGAACCTGGTGTCCTTCCCTTCCCCGTCATAGCCTAGACTGCAATCATTGGCAGACCTTCTGCTCCCTGTAGACATCGTGTTCTCTGCACCTCACCCTCTCTGCTTCCCTCCTCTTCCACCTGGGACCCATTTTTCCCCACCATCTTCTCTGTCTGACTGTTAGCCTCTTCCACTCTCCCTTGTTTTTCTTGTGAAGTAACTATAGAAACTGGGGGTTTTGAGAAGATATTGAATTTTTTTTTTTTTTTTTGAGACAGAGTCTCGCTCTGTTGCCAGGCTGGAGTGCAGTGGCGCAATCTTGGCTCACTGCAAGCTCTACCTCCTGGGTTCACGCTATTCTCCTGTCTCAGCCTTCTGAGTAGCTGGGACTACAGGCGCCCACCACCACACCCAGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACGGTGTTAGCCAGGATGGTTTTAATCTCCTGACCTCATGATCTGCCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCTTGCCCAGCCAATAATACTATTTTAAAAAGAATCAAAACATTAAATAATTCTCAGCATGACTATTGTATAAGTAAACTCTAGGAATCAAATTGCAAGAGACAAACATGATCATCTATATGTTAGATAAAAAAAAAAGATTGTGACATCAGCCTTTTTGTTTTGTCATCTTGTGGCCCTGTGACCTAATTGCAGGGAAAGTAGCTGCAGAATGGGAAGAGGTATGTCTTGAGAGAAGCTCACGGTTTACTTCCACAATTATAAAATGACAGCAGGCCGGGCATGGTGGCGCATGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTAGGTGGATCACCTGAGGTCAGGATTTCATGACCAGCCTGACTAACATGGTGAAACCCCGTCTCTACTAAATACAAAAAAATTAGCCAGGCTTGGTGGCGCATCACTGTAATCCCAGCTACTTGGAAGACTGAGACAGGAGAATCACTTGTGTCTGGTAGGTGCAGGTTGCAGTGAGCCAAGATCGCACCGTTGCACTCCAGCCTGGGCAACAAGAGTGAAACTCCATCTCAAAAAAAAAAAAAAAAAAGGCAGCAAACACCATTTTGAGGCCAGTTATGGCCAGTGCCGCTCAATCACACACAAAATGCTCCCAACCTACAAACAAACCCAGGCATTTTATGAGAGGATGGGTACTGCCTGCTACTCTGTTCCCTTCCAG
Seq C2 exon
AGAGGTGCTCGACGTGTCCCTTCTCTTCCTCCGGGTCATCAGCGCCTGTGCAGATGGCAAGATCCGAATTTACAATTTCTTCAATGGGAACTGTATGAAGGTGATAAAAGCCAATGGCAGAGGCGATCCTGTGCTGTCCTTCTTTATTCAGGGCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000241322-CDRT1:NM_006382:10
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:
PF0040027=WD40=PD(83.8=64.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCTCAGTGGCCACGAGG
R:
CTGTTGCCCTGAATAAAGAAGGAC
Band lengths:
302-1554
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)