GgaINT0079533 @ galGal3
Intron Retention
Gene
ENSGALG00000020084 | CAPN13
Description
NA
Coordinates
chr3:7785028-7786628:+
Coord C1 exon
chr3:7785028-7785194
Coord A exon
chr3:7785195-7786472
Coord C2 exon
chr3:7786473-7786628
Length
1278 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATG
5' ss Score
5.67
3' ss Seq
TAATAACACTTCCTCGGCAGGTG
3' ss Score
6.4
Exon sequences
Seq C1 exon
GATGTCCTATGAAAACTTTCGGGAGCAGTTTTCCTGGCTGTGTGTATGTAACTGCACCCCAACGTTTCTGGACTTCGGAGATCAGCGCCACACAGGATGGTCTGTGGAAAGACACATCAACCTGTGGAGCCCGCTGCTCGCTACTGGCAGGAGCAACTGGTCCTCTG
Seq A exon
GTAATGAATGCTCCCTGTGGTCACCCAGTCCTCTCCTCCTTCTACACCAGTGCTTACATTGAAACATTCACCACGAGCACCAGTTAGCAGAAATATTGATTGGTATTTGTTAACGCCCGCTCTTTCTCATTACAGCACCTATCAGCTAGAGAAACAGATAGGAAGAAAGCAGTGGCACCGGCTGCTGAGCTGGGGAGAATAAAAAAAAAAGGGGGGGGCTTGTGATTTAGAGATCCTAGGCTGCCTAAATCAATATGTGCTTGTCTATGCTCTTTCAGCCTGTTGAAGTAGGTGCTACAGGGGACCTCATCAGAAAGTCTGGTCTGGCAAATATGTGACTGGTCCCCCAGAGAAAGAGGTACTCTGGAATTAAATGGATATAAAATGAAAGAATTGTGCTACAAAGCTCAGTGTTCAAAGGCAAAAAAAGTCCTTTGACCAGATAAGACCATGCATTTTACTGGAGTGCCCGCAACACAGCATAACCATCTGATCAAAAGAGGTGATTCTCCCCTTATACTTAGTGCTGGTGCGGCCTCGCTTTGAGTACTGTATGCAGTACTGGGTTCCACAACACAGAATGGATGTTAAGGTCCTTAAAAATGCTCAGAGGAAGGCAGCAAAGCTGGTAACAGGGCTGGAAGGCACGTCCTGGAAGGAGAGGCTGAGGACTGGTCTGGAGAAGCTTTCAAGGCCACTCAAATACATGGCTTCAAGTCTAGGCTGACTTAAGTAGATGCTGGACACCTCAGACCTCTTCCTCCAGTTTCACTTCTTGTCAGGGATGCATCTTGTTAATTAAACCTTTGGCCTTTTTGTTCTGGTCCTCAGCGCCGTCTTCTGCATCACAAACAGTAATAGGTAGGAAGAGGAGGATATCTTTGGATCACTTTGGGTTTTTCATTTATGTGCTTATGATCTCCAAGACGCAGTGCTTTTCAGCTCAGTCACCAGGTCAGCCAGAGGACTGAAAATCACTGCCTTCCTGCTTGGGGAAAGTGTACCATGGAGGTGAAACAGAGGTGGGTGGGTGAGAAATCTGCCTGACATTTATGACTTTGCCAGAGATTTCTAAAATGACTAATGGGCAATTAATTTAACTCCAGATTCCTCAACTCCTACTAATAAGGTAGGGGCCGCAGTGCTTTGTTGCATCAAAAGCATTTTGGAGAAGTAATTACTTCTTCTTCTGAGTCTTTATAAGCAAGATCTAACACAAGAGGCTACTACTGAGGTCTTTGAGTGGCTATTGCTAATCTAATAACACTTCCTCGGCAG
Seq C2 exon
GTGCAGTTTCAAAGAACCCTCAGTATTTCTTCAAAGTGACAAAACATGACCCCAAATCCTACAATGTGGTCATTTCACTCATACAAAAAAATGCAGAGGGTGTGCATGATGCACAGAAATTGAAGATTGGCTTTTTCATCACCACGGTAAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020084:ENSGALT00000014759:9
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:
PF0064816=Peptidase_C2=PD(6.4=33.3),PF0106717=Calpain_III=PU(16.8=42.1)
A:
NA
C2:
PF0106717=Calpain_III=FE(36.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTATGAAAACTTTCGGGAGCA
R:
CTGTGCTTACCGTGGTGATGA
Band lengths:
319-1597
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]