GgaINT0088798 @ galGal4
Intron Retention
Gene
ENSGALG00000010186 | CAPN1
Description
Calpain-1 catalytic subunit [Source:UniProtKB/Swiss-Prot;Acc:P00789]
Coordinates
chr3:29687253-29688299:-
Coord C1 exon
chr3:29688131-29688299
Coord A exon
chr3:29687337-29688130
Coord C2 exon
chr3:29687253-29687336
Length
794 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
GGTTTGCATGTTCTTTTCAGATC
3' ss Score
7.84
Exon sequences
Seq C1 exon
GCTGAACGGCTGCTACGAGTCGCTCTCAGGGGGCAGCACCACTGAGGGCTTTGAGGATTTCACCGGCGGCGTAGCGGAGATGTATGACCTCAAGCGGGCACCGCGCAACATGGGCCACATCATCCGCAAGGCACTGGAGAGGGGGTCCCTGCTGGGCTGCTCCATCGAC
Seq A exon
GTAAGTGTTCCGCTGCTCTTCACAGAGAACTATGGATGTCTTCTCCTCCAATGATGGGCGAAGTGAGGCCTCACAGCCCTCCTCCAAACCCAAGGTGGTCATTTTACTGGGACACTGGATGGGAGGGGACTCCTTTCACCTCTTGGCAGAGCACCTTTCCCAGAACCAGTGTGACAGCTGAAGGGCATGGGGCTGTGGTTTAGTGGCTTGGAATGGTCTTGTTTTGATGGAATGGGAAACATCCATCTGAAGCCAGGCTGCTCAACAAGGCTCTGCGTAGAGCTCTGGTTGCTTCCTGCGTCAGCATCTGCATGTTAGCTGGGCTGGGCACTTCTGTCCTCTCCCTCTTGGCCACAAACAACAGAATGCACTTTCTCTGTCACCACTGACAGCAGTACCTGTTGGATTGGCAAATTGGAGTAGTAATAAGCACAACAGGGTTAGCTGCTGCCTGCACTGAATGTGTGGCTGGGTTGTACTTCTGCTAAAGAGACTGGCACTCCCAACAGTGTCTGTGTATCACCATCATTAGTGTGTAAGTCGTTTTTTGTAGCTAATGAGGACACTATCTCTGTGCTCCTAATGACAATACTGTGCCTTAGGAAGCACAAAACAATGTTTTCTTATGCTTTCTGAAGTTTGAGTGGTTTCATGGTGAGTCTTCAGTGCTCCTGACTGGAGCATTGTGAAAGAAAGGGTCATTGTCCTTGCAATGTCTCAGCTTCCTCTAAAAAGGGGTAGGGTAATAGAACTACACGAATCATATTCACCTGAGGTTTGCATGTTCTTTTCAG
Seq C2 exon
ATCACAAGTGCCTTTGATATGGAAGCAGTGACCTTCAAGAAGCTGGTGAAGGGCCATGCCTATTCTGTCACCGCCTTCAAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010186:ENSGALT00000016557:5
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(18.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(9.0=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:
CTGAACGGCTGCTACGAGTC
R:
GAAGGCGGTGACAGAATAGGC
Band lengths:
246-1040
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]