GgaINT0063394 @ galGal4
Intron Retention
Gene
ENSGALG00000027785 | CCBE1
Description
collagen and calcium binding EGF domains 1 [Source:HGNC Symbol;Acc:HGNC:29426]
Coordinates
chrZ:9164451-9164718:-
Coord C1 exon
chrZ:9164579-9164718
Coord A exon
chrZ:9164487-9164578
Coord C2 exon
chrZ:9164451-9164486
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
ENSGALG00000027785:ENSGALT00000043658:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.744 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
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]