GgaINT0079536 @ galGal4
Intron Retention
Gene
ENSGALG00000020084 | CAPN13
Description
calpain 13 [Source:HGNC Symbol;Acc:HGNC:16663]
Coordinates
chr3:7768245-7770812:+
Coord C1 exon
chr3:7768245-7768390
Coord A exon
chr3:7768391-7770651
Coord C2 exon
chr3:7770652-7770812
Length
2261 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGC
5' ss Score
9.89
3' ss Seq
CAGCTATGTTTTTCCTTCAGGAG
3' ss Score
8.7
Exon sequences
Seq C1 exon
GTGCAGTTTCAAAGAACCCTCAGTATTTCTTCAAAGTGACAAAACATGACCCCAAATCCTACAATGTGGTCATTTCACTCATACAAAAAAATGCAGAGGGTGTGCATGATGCACAGAAATTGAAGATTGGCTTTTTCATCACCACG
Seq A exon
GTAAGCACAGTTAAATATTACGTAGAAGGTGTTGTTTGCTCTATGGCTTATTATACCTGTACGTGTTAAGCGAAGGATTTTGTTGTCTTTTGGATTGTCTTTTGGAGAGCAATCTATTTGGAGAGGATTTCTGGATGTCTTCTATGTTAAGATGGACCCAACACAAGAAAGGCACGGAGCTGTTGGAGCAGGTCCAGAGGAGGGCCACGTAGATGATCAGAGGGCTGGAAAAACTCCCCTATGAGGACAGGCTGAGAGAGCTGGGGCTTTTCAGCCTGGAGAGGAGAAGGCTCTGGTGTGGTATGTTATAGAGGCCTTCCAGTACCTGAAGGGGGCCTGCAGGAAAGCACGGGAGGCTCTTCTTCAGTGGCTTTGAACTCACTGTCTGTACACAGGGAAATCCTGTGTGGTGCATCTGTCAGCCCTCAGGGTGCCACGAGACCAGCCATGCTGCTCAACTAGAGCTACTTCTCTTGGTAAATGGGAAACCCAGTCCTTCCAGCACCCTCTTCAGCTGTTTGCCAGTGGTCACCAGACATGGAGATCCCTGCATGCGCTAGTATGATGCACGCCCATCTTGATGAGTCACTCATTTTGATAAAAAAGACCTTTGGTGGGTTGTCATGGCATAGTTCTAGAGACCATTGGAAAGAGTTTTTTGTTTAGTCAGGAAGTAGTCCAGGCAAAAGGTTTGCTCTGTTCTCATTTTGTATTTAAAACTTGCTTTGCTTTTCATCTTTCTTCCCCTCCAGTTGATGCTAAGGCGTTTTCATTTTGTTTTGCTCCCAAGGTCGCATGAAATTCAATGAGTGTGTCACTTCTGACTGATGTGACCTCTGTGAGTTGTCAGCCCATAGCTTGCCTCGGCCTGAAGTTGACTTTGGCTCCAAGATGCTCCCATGCAGGAGCTGAAGGGCAAAGTCATAGCAGCTGATTACCAGGGCAATAGGATTTCGGTGGAACACCTTGGTAATGAAGGAAAGATGACCACAGTGCTGCTGCTCCCTCAGTTTATTTCACAGCATCTACCCTCAGTGCCTGAGAGCAGTCAGAAGTGGCATCTTAGTGTAAAAAGTTTGAGGGGGCTCTTTTCAAGAGGAGAGTGCAATTGCTAAGATTCATGTGGTTCATTCTTCCTCCCTCAACTGCTTTTGCTGCTGTTATTCATCAGCAGCATTATTCGTTGTTCGGTATCATTTGAGGCGCATCACATTGTCATTGTGAAGTAAAGGGTATCATCCATTGGCAGGATGAGAGGGGAATGCAGCACAGGCAAAGATGCAAACCAGCATGGACGTAACTGGTAGCTCTATGAAGCCTTTAATTAGGTATTGATGTGGAGAACTAATACATAGCTGTGAGGGAAGTTTGATGTTGTGTGATAGAGCTGAGCAACATATAGAGTCTGATTCTTATCTCACACCAGTTTTGACTTCTTTGAGATATTAATCTGCTTCTGCTTTTTACCAGAAGGAATGTAGGATGAGACACGAAAGTAAAAAAGGATTGTGCCATTTATTTCTTTGCAGCACTGCCCGTTTCTATCTGCTCAATATCTGACCCATAATATTTGGCAGTCTGCATACCTCCCAGCCCTCTCTAACAGTAGTCATCTTTTTTTTTTTCCCTCCCAGAATAGCAGTTTTATGCTATTTTTCTCCCAAAGGCATGGCTCATAAATAACTCTGCCACGCTGTACAACCGTTCTAAATGGAATTTATACATGCTGAAGTATTTGGGGGAATGTGTTTAGTAAGGGTTTTTTATTATGCTATCTTTACATGTCATCGTAATAATAGCCGTTGCATTATATTAGTTTCATCTCAGCAAATATACTGGAATAACAGAAGAAAGATGAGAACGTTCTGTTTCCTTGTGACACTTGCTGGAAGGTTTGAGTTGTGATCCTTGAAGCATTTGCCATCAAAGTGAGATGCTTAGTGAGCTCCCTGGGTTATGCTAGATCTCAGGATGGTTTCAGTCAGAGCATCCTTAATGTTAATTGAGGTTTTCTTCAAAGCCACTTAAATACATTTTCTTATTTCATTTTTTCCCCCCACTTCTTCCAACTTTTTGTATTATTGATGTGGTCTTGGACGAAGTCTGTTCAAGCTTTCCATGCCTCTGGGAAGGTTAAGGCACATTAGATGCAGCGTAGACTTAGAGAGCAGTCGGAACATAAGGCTGCTCTGGGTACACTTACTGATTTACTTTGATTCCTGGCACGGAAGATGAGATAACCAGCTATGTTTTTCCTTCAG
Seq C2 exon
GAGAACTCCAAAGTTCTGAAACAAGATTTCTCCCTTGCACGAGACGTGAGCAGCTGCTTTAATTTGAGCCCAGGAACTTATGCTGTCACTCCTGCTACGACAGAGGACCGAGAATTTGAATTTGTCTTACGAATTTTTGTAAAGAATCAAGACGACAATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020084:ENSGALT00000014759:11
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=0.019
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(37.8=100)
A:
NA
C2:
PF0106717=Calpain_III=FE(41.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
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]