GgaINT0081349 @ galGal4
Intron Retention
Gene
ENSGALG00000009382 | CAPN8
Description
calpain 8 [Source:HGNC Symbol;Acc:HGNC:1485]
Coordinates
chr3:17055500-17056565:+
Coord C1 exon
chr3:17055500-17055618
Coord A exon
chr3:17055619-17056431
Coord C2 exon
chr3:17056432-17056565
Length
813 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TCCTCTCTTCTTCTCATCAGTTC
3' ss Score
8.41
Exon sequences
Seq C1 exon
GTGACTGCTGGCTCCTGGCTGCCATTGCATCTCTGACTTTGAATCCAGATGTTCTTCACCAAGTTGTTCCCAAGGCTCAGAGTTTTCAGGAGAACTATGCTGGGATCTTTCATTTCCAG
Seq A exon
GTAACTGTCTGATCAGGGTATTGAGATTAAAAGAGGAAAACCATAGTATTTAGCTGAAAACAGCTTTTTTTTTTTTTTTTTTCCTCACAAGCTGAGTATTAATAATTAGAACATGTAAGTGACATTGATGGAGGGGAGAAAAGCAGAACAAAGTTTACAGCACTTTCTCACAAACAGGTTTCCTCTACATGCAGCAGCTAGAGGCAGTTTACTTGTGTTCCCAAGCTAACACAGGCTCTTTCTCACAGACTAGTTTCCTGTTCAGGCCATGATCTGTATTTTTTCCACACATTCTCCTGCTCAGCTCAGCAAAGAGGATGTCATCTAAATTATTCTCTTTCTTTTCCCTCCATGACTGTAACAAATTCTAGAGTAAATGCTTTAAGTGCCCAGGCAAAAATGACTATTAATAGTGTTTCATACATTTCCCAGTGTTTTCAGAAGGGACTGGCATTACCAAGTTCTTTCTCTTTTGGGTGATTTCTCCTTGCAGCATTTTTACAGTGGCATGACTTTTTTTTCAAGTGGATAGTACACAAGAGATGTGGACTTTCAAGTTTTCTGTTTATTTGCTAGCTTTCTGGTCCCTCCATCATGTAAGCCATGCATGGAGTACAGAACACATGTTATGTGCAAGAAGCTTCTGTTGATGTTACCTATCAGCAACTCTTTGACATAGTGTTAAGGAGCCTACTCAGCATTTCACAGGACTGGGAAGAACTTGCCTCAGTGACACAGCAGAGGAAGATAGTAGTGTAGATTAAGAATGTGCACACCAGCCCTGACCATCTCTTCCTCTCTTCTTCTCATCAG
Seq C2 exon
TTCTGGCAGTATGGAGAGTGGGTGGATGTGGTGGTAGACGACCGGCTGCCCACCAAGAACGGGGAGCTGCTCTTCGTGCATTCAGAGGAAGGCAATGAGTTCTGGAGCGCACTGCTGGAGAAAGCCTACGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009382:ENSGALT00000015288:3
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=FE(13.9=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(15.7=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:
GACTGCTGGCTCCTGGCT
R:
CGTAGGCTTTCTCCAGCAGTG
Band lengths:
247-1060
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]