GgaINT0078830 @ galGal4
Intron Retention
Gene
ENSGALG00000009360 | CAPN2
Description
calpain-2 catalytic subunit precursor [Source:RefSeq peptide;Acc:NP_990411]
Coordinates
chr3:17026953-17029502:-
Coord C1 exon
chr3:17029495-17029502
Coord A exon
chr3:17027165-17029494
Coord C2 exon
chr3:17026953-17027164
Length
2330 bp
Sequences
Splice sites
5' ss Seq
TCTGTGCTC
5' ss Score
-13.4
3' ss Seq
GTTTTCTTGCTTTCCGTAAGTTC
3' ss Score
4.17
Exon sequences
Seq C1 exon
CTCCTTCT
Seq A exon
GTGCTCTACCTGAGCAGAGTTGGGCTTCCAACCCAAACTCACCAGGGCTGAATCACATACCAGTAGCCTGAGCAGCTATAATAGGAATGCGATGCTAGCCAGGGCACCTGCACAGCTAGGGAAGTATGAGCCCAGTAGCAGAAACAGCCAAAACACCTGTAAAACCCTGTCTGCTGACTAAAGGTTCAGGGATGTGCCTATGGCAGCTCCTTAATCAGTCACTTTGCTTAGAAATACAAGTGTTGCCTGACGTTTGGTCTAACTGCAGGCAACATGTGCAACTGCTTGTTTTCTCAGTACCCCAGATTTGGAAAAGGTTTCTCAAAGAATTTGGTACCCGTAGGCAAATAAGGTTTAACACAGAAGTAAAACCATAGAATCACAGAAGATCCTGTGTTGGAAGGGGTATGCAAGGGTCATCAAGTCCAAGTCTTGGCTCCACACAGTATCACCCAAAATCCAAACTATGTCTGAGAGTGGTGTCCAAATGCCCCTCGAACTCTGGCAGCTCAGAGCTGTGCCCACTGCCCTGGGCAGCCTGTGCCATGCCCGCTGCCCTCTGGGGAAGAACCTTTCCCTAAGCCCCACCTGACCATCACCTGGCAGCTGCACACTGAAGAAATCTGCAAAGATAGGGATTCAGGTCAAGACTGTGAACGAGCAGCACTGCAGCACACAGCTAACTGTCCTTTTCTCCCTGCAGGTGCCCCCAGAGGTACGTAGCATGCGGTGGTGTTGAAGGGTTCAAGGTGAGGCTCTGAGGCTGAGGTCTGTGGGCAGGAACAGTTGAGAGGATCCTCCTTCCCTGAAGGACTATATGGGCTATGCAGAGTCTGAAGTTAGTGGCTGTTTATTCTGAGGTGGGCTTCAGCCTGTGTTGCATTTTCAAAACGTCCTGGGTTCGGATGAGAGCTCGCGGTACAGCAGAAACTCATGAGAGCAGCTCCTTCATGGCTCTTCTCCCAGCACAGACCCACACCTGCTCCTGGCCTGCACAGAGGTCACACCTGACACAATCAGTGTTCCACAGAGGTGTTCATTCTCATTCCCCTGGGCATCCTCTTTCTTTTTTCTCTCAGATTCTGCCTGCAGGCAATTAACAGTGTGCCCCAGAGGTCAGAGCGGGGCGTGCAGTGGGGTGTGATGGCTGAGCAATGCGAGGCAGGGCTGGAGGCCCCTCTGGGACAAACGAGGTGGAGCAAAGTGCCAGGGTGAGCTCAGCCATGGCTTGCTGCACCTGACAGAGTGCACTCAGATCCCTGAGGCACAGGAACAGCACACAGCATATGTGGCTGCTATGTGATGTACCAGTAAGGAAATGGAGTTACAAGTTCATTTAATTTCTTACCTGCCCTCTGACTGCTTTAGCAAATTCTGTTACTCCTCAGCTCTTACCCTAGTGGTCTAAAATCTATTCTGCGTACCAAAAGACTCAAACTACAGTCTGTTGACTTTCCCACCATAGCTGCAGCAGGTCTGACGGGTTTCGCATTCTTAAAAATCTGGGCAGAGGGGAAGGGGAAGTTTCTGAGCAGTGCGTGTTCCTGGTATCCGCTTCTGGATCTGAAATAGCTTGTCTTTAAATCCCTGCCCAGAAGAGTTTGTTCTGGAAGATGTCACCACTCAAATACACTTCTGTAATGTGCAGTGTTAATTTTATTCTCAGAGCCCTGCAGAACTGGGCTCTCTGCTGCAGGGCAGCCTGGGGGAGCAGAGCTGCAGTGCCCTGGTGGCAGTAGTCCTGGGGTCAGGCATCAGCTGCAGTACATCTAGCCTTCACGTAAAATCAGGGATGAAAGAATTTCATAGAATCATAGAATGGTTTGGATTGGAAGGGACCTCAAAGACCATCCAATTCCAACCTCCTGCCACTGGTACCTCTCACCAGTTGAGGCTGCCCAGGGTCACATCCAGCCTGGCCTGGAGCACCTCCAGGGATGGGGCACCACAGCTTCTGTGGGCAGCTGTGCCAGGGCCTCACCACCCTCATTGTGAAAGATTTCCTCCTAACATGTAACCTGAATCTCTCCTCTTTCAGTTTCTCCCTTGTCCTGTCACTATCAGATCACGTTGGTCTCCAAAAAGAGTTATCAGATTCCTTCACGATCTGCTAAACATAAGCATTGCCTGAATGCTGTAGTGAGATGGTCTGCAACACAGGAGTACTGTGCTGTGAGACACCCACTCCCTTTCTCTTTTCTCTTTCATTTTGGTGGAATGCACGTTGTTCTCTGCACACCTAGCTAATTGCCATCTCTATTGTGTTTGTAACTTAAAAGAACAAATACATGCAAATGATGGGTTTTCCCTGTTTTCTTGCTTTCCGTAAG
Seq C2 exon
TTCTCTGGCCAGACAAATATTCATCTGAGCAAAAATTTTTTCCTGACTAACAAAGCAAGAGAAAAATCCAACACCTTCATCAACCTCCGGGAGGTGCTGAACCGGTTCAAGCTCCCTGCAGGAGAATACATCATCGTGCCCTCTACCTTTGAGCCCAACTTGAATGGAGACTTCTGCCTCCGAGTCTTCTCGGAAAAAAATGCAAACTCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009360:ENSGALT00000015245:11
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(1.3=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
Rat
(rn6)
No conservation detected
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]