GgaINT0088801 @ galGal4
Intron Retention
Gene
ENSGALG00000010186 | CAPN1
Description
Calpain-1 catalytic subunit [Source:UniProtKB/Swiss-Prot;Acc:P00789]
Coordinates
chr3:29685619-29686863:-
Coord C1 exon
chr3:29686789-29686863
Coord A exon
chr3:29685780-29686788
Coord C2 exon
chr3:29685619-29685779
Length
1009 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
CTCTGCCTGCTTCCCCACAGGAT
3' ss Score
12.14
Exon sequences
Seq C1 exon
TTCTTCCGAGTGGGACAACATTGACCCCAGCGACAGAGAAGAGCTGCAACTGAAGATGGAGGATGGAGAGTTTTG
Seq A exon
GTGAGTGCCAGAGCAAAGTGCCGCCCTTCTTCAGCACCCAGTTGGGGAATGAGCATGGGAACCTGAAAGAGAACCTGCAGTTATCCCAGAACACATAACCTGCTTTTATTAGCTGTTCTATTGCTAGAAAGCCTGGTAACATTTTCTTATCTGACCCAGTTAATAGGTTGAATATTAGGAAAAGGCTCTTCACCAGAGGGTGGTTGGGCCCTGGCTGTGTGTGGTTGTCAGGTAGTTGAAAGGGGAACCTGAGTACTCGAGAAGGAACTGGAAATGCAGAGTGAGCAGGAGGAAGCTGCTGCTTTTCTTCTGAAACCACCAGAACGAAGTGGTCACCAGCGAGCAGCAGCTTAGGCAGATGTTGGTAGCCTGATGTGGGACTCTGCACTGCAGGGGTGTTTTGTGAGTTCAAAGTGTGATTGTTCAGATGAGTCTCCAGATCCTGGGTGGCTGTTAAAACTGATGGTCTGAGTGAGCCTCAAGTGCAGGTCTTGTGTTGCTGGATGTTGGGGTGATGCTGGGTCTGATCTACTTCTTCTGCCACCATTGCTGGCAGAGGAACCACTGGAGATGGGAGATTGAACAGAAGGAGCCCTTTGCTCTGATCCCTGTCACCCATCATGGTAGGCAGGCTGAAGCTGTTGAGCATATGTCACCTAGACAGGCTGCTTGCCAGTAGTCCTGGCTTTTGTGCTCCCCGGTACCCCCACCCGAGACCACCTATAACTGTGATGATGCCTTTGTGCTTTTCCTCCACCTGGATGTCATTGCTTTGGTTTCTCAAGACTTAGGGTGAAAGAGTTGGTGGGTGCCAACTGCACCAGAGACAGCCTGGCTCATACGTCCTGTTTCACAACAGGGCATCTAGTATTCAGCTCACTGCCATGAGAAGGGGCTCTGGGATGATTTCCATCTCTCTCCACCTAGAAAAGACAGCTTGGGCTGAGTCCAGAGCTGCTTGCACTCCTCAGCCATGTCTTGGCCTTAGCCTCTGCCTGCTTCCCCACAG
Seq C2 exon
GATGTCTTTCCGGGACTTCATGAGGGAGTTCTCCAGGCTGGAGATCTGCAACCTAACCCCCGATGCCCTCACCAAAGATGAGCTCAGCAGGTGGCACACACAGGTGTTCGAGGGCACATGGCGCCGAGGGAGCACTGCTGGGGGCTGCAGGAACAACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010186:ENSGALT00000016557:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.308 A=NA C2=0.036
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.3=34.5),PF0106717=Calpain_III=PU(15.4=43.6)
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:
CCGAGTGGGACAACATTGACC
R:
CTGGGTTGTTCCTGCAGCC
Band lengths:
231-1240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]