GgaINT0083308 @ galGal4
Intron Retention
Gene
ENSGALG00000009069 | CAPN14
Description
calpain 14 [Source:HGNC Symbol;Acc:HGNC:16664]
Coordinates
chr3:7642689-7643535:+
Coord C1 exon
chr3:7642689-7642852
Coord A exon
chr3:7642853-7643371
Coord C2 exon
chr3:7643372-7643535
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:ENSGALT00000014761:10
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(15.8=44.6)
A:
NA
C2:
PF0106717=Calpain_III=FE(34.2=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]