GgaINT0054912 @ galGal4
Intron Retention
Gene
ENSGALG00000009050 | CAPN3
Description
calpain-3 [Source:RefSeq peptide;Acc:NP_001004405]
Coordinates
chr5:24937025-24943412:+
Coord C1 exon
chr5:24937025-24938046
Coord A exon
chr5:24938047-24943342
Coord C2 exon
chr5:24943343-24943412
Length
5296 bp
Sequences
Splice sites
5' ss Seq
CGTGTAAGT
5' ss Score
8.58
3' ss Seq
TATCTGTTTATATTTTACAGGAA
3' ss Score
10.03
Exon sequences
Seq C1 exon
ATCCAGCCCCCACCTGAGAGGTGTTGAACAGACCTCAGTAGCACCAAGTAATATTACCCTTTTTTGTTATTAGGACTGTGTCTTCAGATAACTGGCTCTATAAAATAGACTTTTTCAGTAGCAAAGGGCAGAAACAAGAAGTCAAGTACAACAATTAGTAAGGATGATCAGGACTAGCATATTGGCTTGAAGTACCTCATAAATGTGTTCCCAGACCAGGGGGAGCTCAGCTTCCAGTGTCACTGTTTTTCTCTGCTTAAGGAAGAGATGAGCTGTGTGCACCAGGAGTCAGCCTACACGCAGCTCCTGGCCTGGGCACAAGCTTCACAGCAGACTGACACCCACGCTAACCCCCTCCCTATCGTTTTCCCTCTCTCACACTCTTTGCTGGTAGATATTTTTAGATTTCACTGGTTAAAGCTTGTCTCTTCTCAGTGCTTCTGCACACAGGGCCGACACACACACATGCTGTAGATAGTACAACTCGGGCACAGGACTGAGCCTACAGAGCACCTTGTTCCACATCAAGGAATAAATTCCACTTTCTTACGCAGAAATACTGCCCTTTGAGAAGATGCACAGGGAGCTGAACCAGATGGAATTATATCGCTTACAAGTGTAACTAAGAGATTTCAACAAAAAGGGGCAACAGCAACTTCCCCTTTTCTCCAATTTCCTTCCAGCGTGCGAGATCTTGCTTTCTTTCAACACTTGCTGTGAGGCCACTTCTCATGCCGTCCGCCATAAATGCAGCGGTGGCTCAGCAGACAGCTGCCGGGTCAGTTCCCAGCACTACCAGCACTACCACTGAAGGTACAGGGGGAGGCACAGGAGGGATTTATTCTGCCATTATAAGTCGCAACCAGCCCATTATCAAAGTAAAGGAAAAGACCTATGAAGAGCTTCACAAGAAGTGCCTGGAGGAGAACATTCTCTATGAGGATCCTGATTTTCCACCTAATGAGACTTCCCTCTTCTACAGCCAGAAAGTCCCCATCAAGTTTGAATGGAAAAGACCACGT
Seq A exon
GTAAGTAACACATCTGCTGAGTGCCTTCTGATTTCTGCAAGGTGAACGTGTGGTTTTTTTGCAAAAGGGGCAGGAGGAGGAAGGAAGGGAATAAGCTGCCAATGTATTTCCTTAGAGCTTTCCTGGGAGATAGCTGGCTAGGCAGTAGAAGCTCTGAAAGTATATATAATGACTAAAATATGACAACAATAAAACGAAAAGAGATGGAAGAAAGTATATAAAAATAGAAATATGGAATTTTATTTTATTCTTCCATGATTTGCTAGGAATTTTCTCACTTGAAACTAACCAAAAAAACTTCTCCTTGTTCTGCAACACACTACTGGGTTTTCAACACTACCTTACTTCACTTACAGCTTTTATTTAGTATTCTGCTGTTTTTGTACTCTGAGAAAATAAAAGAACAGGTTATGCTCTGAAACAAGCTTTTACTCGGTTCTTAGTTCTTCACATTGTTTAACTGACTCATGACGCTCCTTACCCACTTACCAAGAGTACGGGTGTTGCAATCATTATGAGGACAGACTCCTGCCTAGAAACCCTCTTTCTCTTTTTTGTATCTTGTGGCCATTCCCCAGCCAGCCACCACCTTTCCTGTGGGAAAGAAAGAATAATTTGTAAGTTCCTAATTAATTCCCCATCCTACCGCAGGGCAATCTTTCCTTTTTTCCTGTCATCCCTGCTGGGCAGCTGCTGACCAGTGCAAGTGATCCCTGGGGCATCCCCTCACCACTGCCCTACAACAGGGATGTGGTTCTGGGGAGCTACTCTGGTTCCCTCAGAGTACCTCTTCAGTGCAGAAATCCCTGCTTCAGTAACAAAGTTAATGGCAGTAGATAAAACTAGCTAGAGAAACATAAGTAAACAGCAAAAGACCAAGTGCCTTAGAACGTAGCTGTTACACAACAGCAACAAGCATCATCATGGGGGTGAAACAGGACTCCCTCTGTCTGTAGTGTTGTGCGTACACGTGCTGTCACATGGCAGAGAGCAGCCCACTCCTTCATCGTCATCATCAGAGCTGCATCAGCTCCTGGAAATATGTGTGGATGAGCTAAATGTGGGAGCAAGCCAGTCATCTAAAAGGGATGGGATTTCCTGTGTTTCTACAGAGAGAAAAGTGGGAAAGAGGTATAGAGGATACGTGCCAGCATCCTGGGGCAAACAAACTGCAACTGTGCATGTGGAAAGGCATCAGAACATGAAAAATACGTGGTACAGTATCACTTCTGTCTCATGTAAATGAGCAGCTTCCTTTTAGAAAGGTTGGGCCGCTCAATGAAGTTTAGAAGCTCTCAACTATTCACATAGCTACAACATACCTGAGGAGGGAGGGAGTTGCGCATGGTGCTCGCTTCTTTTATAACAGATTCACATCACAACAGCAAAAGGAGATTGCTCTTGTGAGCTGATGCATGTTGATGCTGATCTCAGATTGACTCAAAGCTTTGCTTCATTGGACTTTGAAACTATAGGGTATGTGTCACTGACAGCAGGACTTGTCTGATAGTATTATACATGGGAATAGACACAACAACCATATTACAAAAAAAACATAGAGTTAAATGAATATGAAGTAGTAATACAGTAGTTAAGACCACAATGTTAAGAGGTTAAGGCGATCAGTGAAGCACCAAATATAAAGAATCAACTGCATGGGCCATGTTTTGTAATACTGTAAAGATATGGACAACTTCTGTTCTTGTTAAATTACAATGACTTTTTTTGGCAAAGAAAGTGGCTAGTTTGTAAACGATAGTCTTCTAAAGTGGTAATTTCAAATCGGTTTGAAATTCATGTTGAATTGAACCAAATTTGAGAACGTATTGTGAACGAAAACAAAATAGCAAAAGGTCAGAAGTCCTGAGATTGTATCATAATACTGTCTTTGTTCTAGATCCTTTCTCTGTATTTTGATGTGTATGTCACTTACCACCAGAAATAGTGAATAAACAAAGGGTCCACGTGCCATAGGATCTCATCTAACACAGAGAGCTGGGAAAGAAGCCACGTGCTCCTGACCGCCTTTGGCTTTATGAGTCACCTTAGCCGTGCCATGCCACACATTTATATCTAAGCTCTTTCCTCCCAGCCCAAGAGGTTGATGTAGAATATATTAGGAGTGAAAGAGTGATGCTGGTACTGAATGAGCATTATTTGCTATGACACCAATTCACATGAGATTGGTGAATGCAAATTTTTCCAGAAGTCTTTTTCAAGGAATCACAAAGTCAGTCTGAAGGGCACATGTCTGCCATTCCCAAATGCCATGACCAAGCACTAGTAGCAGTGACAATCCTCAGTTGAATAGCACATACGAGATAACATCTGAGCATGGTGTACCAACACTGCTGTTTCTTCTGGGATTAGGGCAAGATCATGCAGCAGGGATGAGATGCCTGGAGCTACCCCTTGCTCTGCTGCATCTGGTCCCAGTGGCAGTGAGAACACAGGGAGTGCCACCATCAAAAGGGTGGCTGCCATGCAGGGCATCTGTGAAGCCTGCTGCTGGGGTGGTGAGGAGGCCCCTGTAATTCTATATGATGACAGCTGTGCTGCGACATGAACGTACCCTCATAACACGCAGCTGGGACTAAAGCCAAGAATGGCCAGAGCAGGCCACAGCACCATGCCTGGCCCAGCTGCTGAGGTGCATGGCAGGGCTTACCAGCCCAGTGTGCTGGCAAGGACCTCTGAAGCAGTCTTTCTAATGCTACATTAATTAGGTCACAGGGAGGCATAGGTTCCCTGTTGTAAGATGAGATCTCTAATAGCTCCTAGCTAAACACCCTGCACCACACAGGAACAAGGAAGGTCTGGACCACAGGGGGGCAAAGGGGGAAGCAGGAGCTTACAAACCCTCTTAGGCCAAGAAGATACTTCCTTTGCTTGATAGGATTGGTTTAGGGAATTTACTTAGAATGCCAGCAGTTCTTAAAGGAATAAATGCTTTTTGCTGCAACAGTATGAGCTGACTGCAGAGCTTTTCCTGACAGAGAAGAAGAGCTAATGGAAATGCAGCAAAAGTCAAATGCCTTTTTTAGTCATGTGCTGCCTTGGTATTTTCCAACTGATGTTCAAGTACTTTCCGGCCAGGAAGCACCATATACACTATGGATGGGTTTTCCTTGGATTCTGTCTCTGCTGCTGTGACAGTCACTCTGCTTCTTTGCACTGAAACTGCAGCCAAAACTGAATCAACTCAAAGGACAGGAAAGGTCCGGTGAATAGTACTGAGGCATTCTGAGGCACTCCTATCAGAGGAGACACCTTCTGGGTGATTCACCACATCAACAAAGTGCAGCCTGACAGCATCCTGTATGGTAATGACCTCTGAGATGAAGAGCAACCTCTTACTCAGCCAGCAGCACTAGAAGATCAGGTGTGTCACCTGCATCTCAAACACCAAGTGACAGTGTGTTTCTCATCACTCTCGGAGCACACTGAAACCCTCCTCTGTATTCCTTTACAGACCCTCCTCCAAAGCAGATGAACACAAGATGCAATAAATCACACTGAATAGCAATTAATCATCAATGCACATTTAGCATTTGTGAACACTTAAGCATAATGTAACTACCTTCACCTAAAAGACAGCATGCTGGATTCCAGGTCTGGTTACTGCAGTGGGAACAGAGTCAGGCTAAAAACACAGTAATGGCAAAGGAAGAAACAAAATCCCAAAGCCCAGAATCTCACACCTGGTTTTCTAGAGAACACCAAGGCAACAAGAAGGATGTTTTCACAAAAGCTAGTGGGTGGAGAAAAGCATGAAGGTATCTCAAACAGCTCAAACAGCTATCTTGACAGAACTGGACCTCGGGACAGCTGACTGAGGCCTGAAATAATGGGACAATCCCTCCATTCCTTTTCTCAAGGAGAATCAGGCAATTGCTCTGGGAAGCCAGAAGCAGGTCTCTTTTTGGCTCTATGACTAATCCAAACATTTATATCAAAGCAACCCTGCTGATTACTGCAGTGGAGCAAAAAGTGAGTTCAAGCCAAGTGAAACTATTAGACCTGTAACCTGAGTCTGGGAAAATCCAGGGCTACCCTGATTGCATCGGAAAATCTTCAGACTGCAGAGTTAGCATCAGCTGTCTGTACTGCCAATTGTTCCACTCACACAAGGAATTTTCAGGTGTTTTCTCTTCCTTCTTCCCACTCCAGCCCCATGATCTTCCTCTGCCAGATGAGTTCTTGGACTGTATCTTCTTCCCCATTTGCAGCTGCTCAGGAAATTGGTCCTCAGTTTGCAGTATCTTTCTTTTCTTACCCTCACAAGAGATGGTCAAAAAAATCACATCCTCTTTTTCTTCCCAATATTTGAGTGTGAGGGATAGGATAGGATAGGATAAAGCAGAGACCTTCTGTTTTAATCTTTTCCTTGTATGAGAGGTTATACCTAATTCTTCCTTTGGCTGTCCTATACCCTGTGGGATTCTTTGTCCCATTTGGGAACCAAAGATGTAATGAATGTGGAAAAGATTCTATGCAAAGACCATAATAGTCCTTTCCCTTTACTGAGATATGTACTTCCTACATATGCCTTCCCTCCTTTCCTCCCTACAGCAGTACCTTAATTTATTCCCATACAGCATCTCATGCCTATTCTGTCCTTACTGATAAACCTGATATATTTTCCCAAGTGCAGGACAAAAGAGATTCCTGTCCTCAGAAACAACTGATATCTGTATTACATTTCTCAATTCAGCATTGGCAATTAAATACTGCAACGTGAGGAAAAGAATAAAATCACTTAGCTGATATTTGATTATTCCTGAGAATCAACTATCTGACCCTGGGCAGGTTTCAGAGAGTATTACTGGAGCTCATTCCTGCTTAAATGCACCCTTTGGCTCTATTTATATATACATCAGCATACTAGTTGTCGCAAGTTGGATTCCTGAAACCTGGAGTCAGTATAAAAGAATTGAATCTAGTTCTCAAACACTCTTTCCATCTGCTTGCTCTCTTCCAATAATATTTTTTCATTGTATGGATAGATATTTTCCCCTATTTTCCTCATTGTAACATCTGTGCAGTCGGTACAGGAATAGTTTCCCTCCTGCTACTCCTGCACTGCCCAAAGCCTGGGATATCCACTGACATGTTGTCAGCAGAGATCTGCAGCTGAAAACTAAGCAATAGGTTTTGATATCCACAAAGTGTCTCACATTAAACTAAAAAAATAAAAAACAAAAAAACATCTTGTCTCTAAACAGCTTTAATTTCTGTGAAAGCCAGGCATCCCAATGTATGCTTTCGTGCTCATCTATCTGTTTATATTTTACAG
Seq C2 exon
GAAATCTGTGAGAATCCACGATTTATTATCGGCGGAGCCAACAGAACAGATATCTGCCAAGGAGAATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009050:ENSGALT00000032636:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.284 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PU(58.0=29.9)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(6.7=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]