GgaINT0078830 @ galGal3
Intron Retention
Gene
ENSGALG00000009360 | CAPN2
Description
NA
Coordinates
chr3:18804393-18806231:-
Coord C1 exon
chr3:18806220-18806231
Coord A exon
chr3:18804605-18806219
Coord C2 exon
chr3:18804393-18804604
Length
1615 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGT
5' ss Score
10.2
3' ss Seq
GTTTTCTTGCTTTCCGTAAGTTC
3' ss Score
4.17
Exon sequences
Seq C1 exon
GTGCCCCCAGAG
Seq A exon
GTACGTAGCATGCGGTGGTGTTGAAGGGTTCAAGGTGAGGCTCTGAGGCTGAGGTCTGTGGGCAGGAACAGTTGAGAGGATCCTCCTTCCCTGAAGGACTATATGGGCTATGCAGAGTCTGAAGTTAGTGGCTGTTTATTCTGAGGTGGGCTTCAGCCTGTGTTGCATTTTCAAAACGTCCTGGGTTCGGATGAGAGCTCGCGGTACAGCAGAAACTCATGAGAGCAGCTCCTTCATGGCTCTTCTCCCAGCACAGACCCACACCTGCTCCTGGCCTGCACAGAGGTCACACCTGACACAATCAGTGTTCCACAGAGGTGTTCATTCTCATTCCCCTGGGCATCCTCTTTCTTTTTTCTCTCAGATTCTGCCTGCAGGCAATTAACAGTGTGCCCCAGAGGTCAGAGCGGGGCGTGCAGTGGGGTGTGATGGCTGAGCAATGCGAGGCAGGGCTGGAGGCCCCTCTGGGACAAACGAGGTGGAGCAAAGTGCCAGGGTGAGCTCAGCCATGGCTTGCTGCACCTGACAGAGTGCACTCAGATCCCTGAGGCACAGGAACAGCACACAGCATATGTGGCTGCTATGTGATGTACCAGTAAGGAAATGGAGTTACAAGTTCATTTAATTTCTTACCTGCCCTCTGACTGCTTTAGCAAATTCTGTTACTCCTCAGCTCTTACCCTAGTGGTCTAAAATCTATTCTGCGTACCAAAAGACTCAAACTACAGTCTGTTGACTTTCCCACCATAGCTGCAGCAGGTCTGACGGGTTTCGCATTCTTAAAAATCTGGGCAGAGGGGAAGGGGAAGTTTCTGAGCAGTGCGTGTTCCTGGTATCCGCTTCTGGATCTGAAATAGCTTGTCTTTAAATCCCTGCCCAGAAGAGTTTGTTCTGGAAGATGTCACCACTCAAATACACTTCTGTAATGTGCAGTGTTAATTTTATTCTCAGAGCCCTGCAGAACTGGGCTCTCTGCTGCAGGGCAGCCTGGGGGAGCAGAGCTGCAGTGCCCTGGTGGCAGTAGTCCTGGGGTCAGGCATCAGCTGCAGTACATCTAGCCTTCACGTAAAATCAGGGATGAAAGAATTTCATAGAATCATAGAATGGTTTGGATTGGAAGGGACCTCAAAGACCATCCAATTCCAACCTCCTGCCACTGGTACCTCTCACCAGTTGAGGCTGCCCAGGGTCACATCCAGCCTGGCCTGGAGCACCTCCAGGGATGGGGCACCACAGCTTCTGTGGGCAGCTGTGCCAGGGCCTCACCACCCTCATTGTGAAAGATTTCCTCCTAACATGTAACCTGAATCTCTCCTCTTTCAGTTTCTCCCTTGTCCTGTCACTATCAGATCACGTTGGTCTCCAAAAAGAGTTATCAGATTCCTTCACGATCTGCTAAACATAAGCATTGCCTGAATGCTGTAGTGAGATGGTCTGCAACACAGGAGTACTGTGCTGTGAGACACCCACTCCCTTTCTCTTTTCTCTTTCATTTTGGTGGAATGCACGTTGTTCTCTGCACACCTAGCTAATTGCCATCTCTATTGTGTTTGTAACTTAAAAGAACAAATACATGCAAATGATGGGTTTTCCCTGTTTTCTTGCTTTCCGTAAG
Seq C2 exon
TTCTCTGGCCAGACAAATATTCATCTGAGCAAAAATTTTTTCCTGACTAACAAAGCAAGAGAAAAATCCAACACCTTCATCAACCTCCGGGAGGTGCTGAACCGGTTCAAGCTCCCTGCAGGAGAATACATCATCGTGCCCTCTACCTTTGAGCCCAACTTGAATGGAGACTTCTGCCTCCGAGTCTTCTCGGAAAAAAATGCAAACTCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009360:ENSGALT00000015241:11
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(1.9=100)
A:
NA
C2:
PF0106717=Calpain_III=FE(44.9=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]