GgaINT0088796 @ galGal3
Intron Retention
Gene
ENSGALG00000010186 | CANX_CHICK
Description
NA
Coordinates
chr3:31558214-31558578:-
Coord C1 exon
chr3:31558460-31558578
Coord A exon
chr3:31558348-31558459
Coord C2 exon
chr3:31558214-31558347
Length
112 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGC
5' ss Score
5.52
3' ss Seq
TCACCCCTTCTTCCCCCCAGATC
3' ss Score
11.91
Exon sequences
Seq C1 exon
GTGACTGCTGGCTGCTGGCTGCCATCGGCTCCCTCACTCTCAACGAGGAACTCCTGCACCGTGTGGTGCCCCACGGGCAGAGCTTCCAGGAGGACTACGCTGGCATCTTCCACTTCCAG
Seq A exon
GTTGGCTGGGAGCTCCTGGCTCTGCACAGCTGGTGGGCTGGGGGCAGGATGGGCCGTCTGGGGGCATCCTTCAGGGGGATGCCCTGTTCTGCTCACCCCTTCTTCCCCCCAG
Seq C2 exon
ATCTGGCAGTTTGGTGAGTGGGTGGACGTGGTGGTGGACGACCTGCTGCCCACCAAGGACGGGGAGCTCCTGTTTGTGCATTCAGCAGAGTGCACAGAGTTCTGGAGTGCTCTGCTGGAGAAGGCTTACGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010186:ENSGALT00000016557:3
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:
PF0064816=Peptidase_C2=FE(13.0=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(14.7=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:
GTGACTGCTGGCTGCTGG
R:
TAAGCCTTCTCCAGCAGAGCA
Band lengths:
247-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]