GgaINT0083308 @ galGal3
Intron Retention
Gene
ENSGALG00000009069 | CAPN14
Description
NA
Coordinates
chr3:7658825-7659671:+
Coord C1 exon
chr3:7658825-7658988
Coord A exon
chr3:7658989-7659507
Coord C2 exon
chr3:7659508-7659671
Length
519 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
TTCTTGTTTTTACTTCTTAGGCA
3' ss Score
8.91
Exon sequences
Seq C1 exon
GATGTCTCTGCAAGATTTTAAGATTCATTTTGTAGACGTTGTGATCTGTAAATTAACTCCAGACCTGGTGAGCCAGGAAGATGGGAAAAAGTGGATGTATTCCCTGAAGAATGGGAGATGGGTTAAAGGAAGCACAGCAGGAGGAAGTCTGGGATTCTCCAAGG
Seq A exon
GTGAGGGGTGTTTAGTGCTCTTTTGGGTGCTCTGTGGTGTGACTCTTCTGTGTTGCCTCAATTGTTAGCACCCTTATACTCCTTAACACAAATCTGATGACAGAACGTTCTCTTCTTTCTTAACTCCCTGCACAAGCATCAGAAATAAGCAGCTAAAGAACATTGCCTAGCTTCTGCCATCACAGAAGCTGCATTACTTGCAAACATAGGGCAGTAGGCTGGTTATGGTATGAAATAAGCTGCAGGAGTCTTAGCATTCATGCATTTATAAACAATGTAGACTTTAACGGCAGTCGGGCAGAAATGAAGCTCCTTGTTTCTGAGCTTTCCTTCAGTCTTACATAGGAATTTTAGCACTAAACTTGTAAACTGCATCCTAAGATCAAATCCCAGTGAATTCTGGAGGCCCAGACCACTTGGGATCCATTTGGTCTGAGCCCAAGCATCGAATGGGAAGCCAGCAACCAATCTTGAGATGGAAAACAATGTGTAAGTGGTTTTCTTGTTTTTACTTCTTAG
Seq C2 exon
GCATGTTTTGGATGAACCCCCAGTACTGGTTGAATATTTTAGCAAGTGAAGACAGTAGGAGAAACCTGGGTTCCTGCAGTGTGGTTATATCCCTGATGCAGAAACACAGCAGCAAACACCGGAACCGAGCTCCTCACCTCTTCATTGGCTTTTCACTCTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009069:ENSGALT00000014761:9
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=PD(6.3=33.9),PF0106717=Calpain_III=PU(16.3=44.6)
A:
NA
C2:
PF0106717=Calpain_III=FE(35.3=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:
TGTCTCTGCAAGATTTTAAGATTCA
R:
CTTGTAGAGTGAAAAGCCAATGA
Band lengths:
326-845
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]