GgaINT1008463 @ galGal4
Intron Retention
Gene
ENSGALG00000027785 | CCBE1
Description
collagen and calcium binding EGF domains 1 [Source:HGNC Symbol;Acc:HGNC:29426]
Coordinates
chrZ:9247392-9247668:-
Coord C1 exon
chrZ:9247568-9247668
Coord A exon
chrZ:9247473-9247567
Coord C2 exon
chrZ:9247392-9247472
Length
95 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCCGGCGCCCTGTCTTGCAGGGA
3' ss Score
9.91
Exon sequences
Seq C1 exon
ATGGGGCGGCCGGCCCGTAGCCTGGCCCCGCTCCGGCTGCTGCTGCTCGTGGCGCTGGGGCACGCCTGGACGTACCGGGAGGAGCCGCAGGACAGCGACAG
Seq A exon
GTGAGTGTCCCCCGGCCGCGGGTCCCCCCGCGCTCCTCTTCTTTTTTGCTTTCTTATTACTGTTCTCATTTTCCACCCGGCGCCCTGTCTTGCAG
Seq C2 exon
GGAGGTCTGCTCGGAGAACAAAATCGCCACCACCCGCTATCCGTGCCTGAAGCCCACGGGGGAGCTCACCACCTGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027785:ENSGALT00000043658:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.009
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGCCTGGACGTACCGG
R:
CTGAAGCAGGTGGTGAGCTC
Band lengths:
122-217
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]