GgaINT0081354 @ galGal3
Intron Retention
Gene
ENSGALG00000009382 | CAPN8
Description
NA
Coordinates
chr3:18837775-18839000:+
Coord C1 exon
chr3:18837775-18837849
Coord A exon
chr3:18837850-18838839
Coord C2 exon
chr3:18838840-18839000
Length
990 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGC
5' ss Score
7.43
3' ss Seq
ATGGTCTTTCTGTGCTCTAGGAT
3' ss Score
10.38
Exon sequences
Seq C1 exon
TGCTCCCGAATGGAATTATATTGATCCCAAACAAAAGCAGGCTCTGGATAAGCAAGTAGATGATGGAGAATTTTG
Seq A exon
GTGAGCATCATTAATTAGTGCAGTCTTTTGGATATTATATGTGCAAATGTGGTTTTTAAGCAGTCCTTACAGTTGGATGGATAGAAACTGCTAGCACTGAGTTAACTTGCGTAGGTGGTTAGCCTCTTGTTTATTTCCCTTCCCATTTAAATATTACCTGTTATTAGAGCTTGGATAACTCAGTGCTTACTCAAAATATAGAGACCAGATGGTAATAAAATTAATGATGTGGCAAGAATGAATCTCATATGCTTTATATTTTGAGGCTTGTTTTTTGCCTGAATGCTACTCACTAATGAAAGGGTTTAGATTGTCAACAGGGGAAGAATCTGTTTGCCCAAACCTGATGGAAAGACCATGTAAGCTAGGTGATTGTGTGGATCAGTGCTGAACCCATGTCACTCTGTCCTAGAGCAGAAAGACAAATGCCTGCCATCTTTCAGGACAATCAGCTGTGTGGGATATAAAGTGGTGAGGGCTGAGAACAGACCTCTGCTTGCAGCATGAAGTGATCAAGGTCTGTTACACACACCTACTAGAAATGGTAAAAATAAGCATTAACAAAAGTTTTAAATCAATATACCAAACTGAGATGATTTTTCTGCAGAATGACTCTTTCCTAAGGATCAATTCTTGCTTCCACTTAATAGCATTTTGCTGCATGTTTTGGTACACCAGTTTTATTGAGTTTACTTAGAAAGCAAAATCCATGAGGGATTGACCATGACTGAGGATGACAGAAAATGGTACCACTGAGCCTGTAATATGTAACAGCTTTTGAGAACAGCTGTCTTCATGAAATACAGCTCATTCAGGGAGTGGGAAATTTTGCTTCCCCAGAGCCAGTTCTAAGACTCAGAGTTCAATTAAATGGAGCTTTGGGCAGCTCTGTAATACCAACATTTGCTTCCTTGTTGGGAGAGGCATCCACATGCTGTTGCTCTGACTGTTATGGGCTGATGAACTAACCATGGTCTTTCTGTGCTCTAG
Seq C2 exon
GATGGCGTTTTCTGATTTTCAAAGGCAGTTCACCCGTCTGGAGATCTGCAACCTGACTCCTGACACACTGACAAGCAATCAGGTCAACAAATGGGACCTGACCATGTTCAATGGACAGTGGATACGGGGTTCAACAGCTGGAGGTTGCCAGAACTACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009382:ENSGALT00000015288:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PD(8.9=92.6)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.3=34.5),PF0106717=Calpain_III=PU(15.2=43.6)
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:
TGCTCCCGAATGGAATTATATTGA
R:
CTGGGTAGTTCTGGCAACCTC
Band lengths:
236-1226
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]