GgaINT0110205 @ galGal4
Intron Retention
Gene
ENSGALG00000000750 | CAPN5
Description
calpain 5 [Source:HGNC Symbol;Acc:HGNC:1482]
Coordinates
chr1:192464486-192465288:-
Coord C1 exon
chr1:192465211-192465288
Coord A exon
chr1:192464682-192465210
Coord C2 exon
chr1:192464486-192464681
Length
529 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CTCTGTCCCTTCTGACTTAGGAT
3' ss Score
9.82
Exon sequences
Seq C1 exon
CTCTGAAGAGTGGCAGAAAGTGAGCAAAAGTGAAAGAGAGAAGATGGGAATGACAGTAGAAGATGATGGCGAATTCTG
Seq A exon
GTGAGTCCTTCCTGAGGCTGCCACCATGGACAGTGTTCACAGTCCTCCCATCCCTTGAAGCATCTCAGTCATTACCATTCAACTAGCTAACCAGAGCAAATGGCCTTTCAAGCAATAGGATTTTCAGTGGCATCTCCTTCTTTTGCCCATGGGTATTAGCTGTGGCTGGTCATGACCCTAGGATTGCAAGCTGCTCAGTATCACACTGGTTCCAAACCATTTCACTAGGGCACTAGAAACCTGTTAGAAGTGCGCTGAGCATAACCAACTCACCAGGTACACGTATCAGTACCGCACATACCCATACATGCAGGAGAACCAATTGCTTTGCTTCTGTCACTCCAACACATACAACTGTTTTGTTTTAACAAATGAACTATTTGCTGTGTGCGTGGAGAAAGGTGTCTCCACCTCTTTTGTTGGTATCAGAGGCTACCCACAGTCTCTAACAGGTGATTGAGTATCTCCCTGCACTATGCTGCTCAGAGAAACAAAGCAGCATAACCGAGCTCTGTCCCTTCTGACTTAG
Seq C2 exon
GATGACCTTTGAAGACTTCTGTAGATACTTCACAGACATCATCAAGTGCCGTCTCATCAACACGTCCTACCTCAGCATCCATAAGACCTGGGAGGAGGCAGTGCTACACGGGGCATGGACCAGACATGATGATCCCTTGAAGAACCGCAGTGGAGGCTGTATCAACCACAAGGACACCTTTTTGCAGAATCCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000750:ENSGALT00000001093:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.407 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.2=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.0=28.8),PF0106717=Calpain_III=PU(25.0=54.5)
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:
TGAAGAGTGGCAGAAAGTGAGC
R:
TGAGGATTCTGCAAAAAGGTGTCC
Band lengths:
270-799
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]