DreINT0048539 @ danRer10
Intron Retention
Gene
ENSDARG00000033345 | cntln
Description
centlein, centrosomal protein [Source:ZFIN;Acc:ZDB-GENE-090313-409]
Coordinates
chr1:26298076-26298547:-
Coord C1 exon
chr1:26298385-26298547
Coord A exon
chr1:26298241-26298384
Coord C2 exon
chr1:26298076-26298240
Length
144 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAG
5' ss Score
8.04
3' ss Seq
GTCTGTTTCTGCTGTGACAGCTC
3' ss Score
6.53
Exon sequences
Seq C1 exon
GCGTGAGCTCCAGGACCTGCAGTGTCTGTACAAGCAGAGCGTAGAACATGCAGGAGAACAGGCCCATCTTATTCAGCAGCTGGAGGGTCTTAACCTGGACACGCAAAGAGTCCTGCGCAGCCAGGAGGAGGCCCACACAGCGGACACCGTCTCTTACCAGAAG
Seq A exon
GTACAGGCACGCATCTGTTGTGTGAACTTAGCGCCTGTCCTCACAAGTGAACGCGCTGCCCCTCGGGGGGTGAACTTGTGTTGGAGCAAGGACTTAACTGCATTAACCGAGCTTGTCCTTCACTGTCTGTTTCTGCTGTGACAG
Seq C2 exon
CTCTACAGCGAGCTGAGCGTGTCATACCAGGCCCTTTGGCACAGCCAGGAACAGCTCCACCAGCGGGAAGCAGCCCTCAGCATGCAGCTCAGCCAGAGAGATCAGCAGATCCAAGAACTCCAGGCACAGCTGCAGAGTTTCACAGCAGCCGCGGGGCACTGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000033345:ENSDART00000147414:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.236
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGAGCGTAGAACATGCAG
R:
GCCTGGAGTTCTTGGATCTGC
Band lengths:
256-400
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]