HsaINT0032829 @ hg19
Intron Retention
Gene
ENSG00000241322 | CDRT1
Description
CMT1A duplicated region transcript 1 [Source:HGNC Symbol;Acc:14379]
Coordinates
chr17:15517147-15519123:-
Coord C1 exon
chr17:15518959-15519123
Coord A exon
chr17:15517348-15518958
Coord C2 exon
chr17:15517147-15517347
Length
1611 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TTTCTCCGGCTTCACTCTAGAGG
3' ss Score
7.37
Exon sequences
Seq C1 exon
GGCTCAATCAAGACATCACAGATGTGTGTTTTTCCCCTGAGAAAGACCACAGCTCCAAGTCTGCGACCTCACAAGTCTATTGGACAGCCAAAACTCAGCACACATCCCTTCCTTTGTCCAAAGCCCCAGAAAATGAACACTTCCTTGGGGCAGCATCTAACCCTG
Seq A exon
GTAAGTGAACTTTCAGCAAGAAAGCCAATATGGGCTAGGTGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAAGCAGATCATGAGGTCAGGAGATCGAGACCATCCTGGCTAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAAAATTAGCCGGGCGCAGTGGCAGGCACCTGTAGTCCCAGCTACTGAGGCAGCAGAAGGGCGTGAAGCCGGGAGGCAGAGCTTGCAGTGAGCCGAGATCATGCCACTGCACTCCAGCCTGGGCAACAGAGCGAGACTGTCTCAAAAAAAAAAAAAAAAAAAAGAAAGCCAATATGCAACCAATGTGAGATTGGGAAGACCCAGTGGAACTGGAGGGGCTGGCAGGGTGATAGCATCTGGGGATGGCAGATTTGAGGAACTCACATTCATTTAGCATCTACAATGTGCTGGGCTCTTTGACATTACTTTCCCATCTAATTCTCACAGCTGGTAAGGGGAGGAGCAAGGATTAAATTGATCAATATGGCCCCCAAACCCATATTTGCACCTCTCCGCTGCAGTGCCCACAAGACACATCTGAAAATAGAGATCAGAAAGGAAACTATCAATGATTTCCTTTGGAGTCTTTCTCTGCTCTGGGCCACAATCCATCATCTAGTCCCTGGGCTCTGGCATGGTGGCCAGCTCTAGAATTAAACCCACCAATGGCTATTTTTGCAGTATTGGATTCAGTCTTGAGGAGGGAACAAAACTAATGGGGAATTTGGTTCCCCACCTCAAGGCACTCCTAAGTTGGGAACTGAAGCAAGACATATACATGAAATATCATCGGAAACACAATATCGTAGGAAATACAAGGCATAGATTCTAAAACACTTTTATATGGAAAATTTCAAATTTCAAAAGTATGTAGAACAGTATGATAACCACCCACCCACATAGCACTGGCTTCAACAATTATCAACACTTTACCAATTTTATTCCATTCATTTTCCCCCCTTTCTTAAGTTGTTTAAAATTTTTTCTTGTTGGAGTATTTTTAAGAAAATTCCAGGCACAATATCATTTCAGACTCTGATACTCTAGACTTCTCCTTGGGCTGAAAAAGCTGAAAAGCACATGTATATTTGGGTCAAAAGATTCTATTCTCGGCCGGGTGCAGTGCCTCACGCCTGTAATCCCAGCACTTTGGCAGGCTGAGGCGGGCGGATCACACGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGCCTCTACTAAAAAAAAAAATACAAAAAATTAGTCGGGCGTGGTGGCGGGCGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCAGAGCTTGCAGTGAGCCGAGATCGCGCCACTACACTCCAACCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAGATTCTATTCTCAAGTGGCAGAAGAGATGACAAAAATCTAGTGGCCTAAGGTTAGAGTCTGAGGAGGTTTATTTTGTGGGAGAGCTTTTGGTGGGGACTTGTTCTCGGCCTGGAGTTTCTACAGAGCCAACTCAACCACGTACCTTTCTCCGGCTTCACTCTAG
Seq C2 exon
AGGAACCATGGAGGAATTCACTCCGGTGTATATCCGAAATGAATAGGCTGTTTTCTGGAAAAGCAGACATAACCAAGCCAGGGTACGATCCCTGCAATCTATTGGTTGACCTGGATGACATCAGAGACCTGTCTTCTGGGTTCAGCAAATACCGAGACTTCATCCGTTACCTGCCCATCCACCTCTCCAAGTACATTCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000241322-CDRT1:NM_006382:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0064628=F-box=PU(31.8=20.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGATGTGTGTTTTTCCCCTGA
R:
TGTACTTGGAGAGGTGGATGGG
Band lengths:
343-1954
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)