DreINT0051774 @ danRer10
Intron Retention
Gene
ENSDARG00000060106 | crb2a
Description
crumbs family member 2a [Source:ZFIN;Acc:ZDB-GENE-060612-1]
Coordinates
chr21:8392349-8392838:-
Coord C1 exon
chr21:8392643-8392838
Coord A exon
chr21:8392489-8392642
Coord C2 exon
chr21:8392349-8392488
Length
154 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAAA
5' ss Score
6.02
3' ss Seq
ACTTTTTTATTTGTATACAGTTA
3' ss Score
7.08
Exon sequences
Seq C1 exon
GTGTAAACTGTGAGTTGGAAATCGATGAATGCGAGTCAAATCCCTGTCAAAACGGAGCCACCTGTCATGACCTAGTGGGACTGTACACCTGTGACTGTGTGCAGGGATTTGAAGGCTCGGACTGTGAAATTAATATTGATGAATGTGAAAGTGGTCCTTGCCAGAATGGAGGACTTTGCCACGACCGCATTGATAG
Seq A exon
GTAAAAGAACTCGACAGAGTCATGCACAATAGCATGCCTATACACTGCCCATAGTGTTTTCATTTACTGTCTGTAAAATAAATTTAACATGTTAGTCAACATTCTAAGTTTATATTGATAGTTACAATACACTGACTTTTTTATTTGTATACAG
Seq C2 exon
TTATGAGTGTGAATGTGAAGGCACTGGATATATGGGAGACCACTGTGAAGAGGATATTCCAGAATGTGCATCACATCCTTGCCAACATGGAGGAACTTGTCTGGAGGGCATTAACCACTACAACTGTTCCTGTTGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060106:ENSDART00000084378:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(6.5=3.0),PF0000822=EGF=WD(100=47.0),PF0000822=EGF=PU(53.1=25.8)
A:
NA
C2:
PF0000822=EGF=PD(43.8=29.2),PF0000822=EGF=PU(80.6=52.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAACGGAGCCACCTGTCATG
R:
CCCTCCAGACAAGTTCCTCCA
Band lengths:
256-410
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]