GgaINT0110208 @ galGal4
Intron Retention
Gene
ENSGALG00000000750 | CAPN5
Description
calpain 5 [Source:HGNC Symbol;Acc:HGNC:1482]
Coordinates
chr1:192462406-192463073:-
Coord C1 exon
chr1:192462877-192463073
Coord A exon
chr1:192462528-192462876
Coord C2 exon
chr1:192462406-192462527
Length
349 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
TACACATTTCTCCCCAATAGAGA
3' ss Score
7.06
Exon sequences
Seq C1 exon
GTGGAGCTGAACAGGAACTACCGGATGCACACCCTGCAGCAGAAGGTGGCCAGTTCCATTTACATCAACTCCCGTAGTGTCTTCCTGAGGACGGACCTGAAGGAAGGTCGCTATGTCATCATCCCCACCACTTTTGACCCTGGTCATGTAGGCGAGTTTCTTCTCAGGATTTTCACAGATGTGCCTTCGGATTGCCG
Seq A exon
GTAAGGAACAAGAGCAGTGGTAGAGAGGAGCTGACTTTTTGGAGAGTGCTTTCTGCTTTTCTAACGTGGTAGCCCTGACTGGAATTGGCCATAGCCTTGTCCAGAGCTGGTGTTTGGCTTCTTTGCAAAGGTGGCCAAGAGACAAAGACATGTGGAGACGTTCCCACTCTGCTTCTAAGCATGACATGGGAGAGCATCTCAACCCTCGGGTGAGAAGGAGATCAGAATGGGGAGCAGAGTCTGCCAGTGGATGGTGCATAGGCTTTCCATCCTGCTAGAGAAAACTCATTGGCCTGCCCATCGGGTAAGGCTGGGCACATCCCAAATATTACACATTTCTCCCCAATAG
Seq C2 exon
AGAGCTGACGCTGGATGAGCCACCACACACCTGCTGGAGTGGGATGTGCGGGTACCCTCAAGTGGTGTCCCAGATCCACGTCCTCACCGCAGCTGGCCTCAAGAATCAGGACTCCCAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000750:ENSGALT00000001093:10
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:
PF0106717=Calpain_III=FE(45.1=100)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0),PF0016825=C2=PU(22.5=42.9)
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:
GTGGAGCTGAACAGGAACTACC
R:
TCCTTGGGAGTCCTGATTCTTGA
Band lengths:
318-667
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]