GgaINT0063394 @ galGal3
Intron Retention
Gene
ENSGALG00000002613 | CCBE1
Description
NA
Coordinates
chrZ:8646625-8646892:-
Coord C1 exon
chrZ:8646753-8646892
Coord A exon
chrZ:8646661-8646752
Coord C2 exon
chrZ:8646625-8646660
Length
92 bp
Sequences
Splice sites
5' ss Seq
GTGGTCAGT
5' ss Score
4.85
3' ss Seq
CCCTTTCTTTTCTGCTGCAGGGC
3' ss Score
11.65
Exon sequences
Seq C1 exon
GGGCACCAGGACCGAAAGGAAGTCAAGGAGTTCCTGGGTCACCTGGACCTCCTGGACAGCCAGGCCCCCGGGGATCAATGGGACCTATGGGCCCATCTCCAGATATATCCCACATTAAACAGGGCAGACGAGGCCCCGTG
Seq A exon
GTCAGTATTCTTACCTCCTCGCATGCACTGTATGACTGACCTTAGGCCTGCAACCAATCATGTCCTGATGAACCCTTTCTTTTCTGCTGCAG
Seq C2 exon
GGCCCACCTGGAGCACCGGGGAGAGATGGTAGTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002613:ENSGALT00000004114:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(69.4=72.3),PF0139113=Collagen=PU(20.5=17.0)
A:
NA
C2:
PF0139113=Collagen=FE(28.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGTTCCTGGGTCACCTG
R:
CTTACTACCATCTCTCCCCGGT
Band lengths:
151-243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]