GgaINT0083318 @ galGal3
Intron Retention
Gene
ENSGALG00000009069 | CAPN14
Description
NA
Coordinates
chr3:7667301-7668494:+
Coord C1 exon
chr3:7667301-7667379
Coord A exon
chr3:7667380-7668377
Coord C2 exon
chr3:7668378-7668494
Length
998 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
TTTTTTCCCCTCTCCTGAAGGTA
3' ss Score
9.73
Exon sequences
Seq C1 exon
GAGGTTTTCCAGAAAAGAGACACTAGCAGATCAGGAAAGCTTGACCTGGTAGAACTGCGTGCAGCTGTACAGGAGACAG
Seq A exon
GTGTGTGCCACAGCACATCTTGGTGAAGCTCATCCTCTTCCTCAGAAAGGCTGGGAAAAATTTGAGCAGGAATAAATCTTGACTTGTTGGCAGAACCCAGGAAGAGTGGGAATGATCATAGGCTGCATGGTCTTAGCCATCTCTGCTTCCCTTTATAGCTAGCTAAAAATATCTGAGAAGTATTTTGCTCTGTGGTAGCTTGCTTAATCTTTGCCTTTATCTTTGGCATTATACCGATGACATGTCAGGGACTGAACCTGGAAGTCTGGGACTTGCACAGAGGCAATACCAGTGCCAGGCTTCACTAATACACCATCTTGAGCTTAAAATAGAAATGAAGATCATACACAAAGGGCCAAATACCTGGACCAAGGTCTGTTGTGCTCACCATACTTTGAGTGGGGGTTGGTGCTCAGTCTTTTACCTCCTTTTGCAGTTTTAGAGCTTGAATGTCACTCACCTTCTTGATGTGTGGTTCACCCAGTTCATCTGTGTCAACAAATGCACAGTTTGAAACCCATGCAGACCTCTACTAAAGCAAATTAAAGTACCGGGCCATGAGTAGGAAATACTACTAGCAAATTTCCTGCAAATGCTACTTGACATGCTTTCCTCTGGATTTTCTTTCTCCTTTCCTCTCCTACCGTCTTGTGGAGTATTGCTCTTAAACGCAGCTGCTGTTACTGCCTTCCATTCACTCATGAGTGAATGATGCCCGTTTGTGTTTTATTCCAGCTCTAACAGGGACAGGAGTATAGGTGACCAGCTTTGACCCCCTTTACAGTTTGAAAGAGCTGTCTGCACCTGAGGGGCTGGTTTGGGCTGGTTAGCACTTGATAAACATAGGGGAGGTTTGAAAAAGCAAATGGCTGTGAAAGAGACTGAGATCAATGAGTCGTGTACACCCAGAAGCATACACATTTAGCTGCCCACAACTGGGAGTTGCCCTCCCATAATGTTTTTCATGATTTTATTTTATTTTTTCCCCTCTCCTGAAG
Seq C2 exon
GTATTTCACTCAGCAATGAAGTCTGTAATTTGATGGCGATCAGATATGGTGACCCTGACTTGAAGATCAGCTTTGAGAGCTTCATGTGTTTCATGCTTCGAGTAGAGATCATGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009069:ENSGALT00000014761:19
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:
PF134991=EF-hand_7=FE(28.3=100)
A:
NA
C2:
PF134991=EF-hand_7=FE(42.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTTTCCAGAAAAGAGACACTAGC
R:
TCCCATGATCTCTACTCGAAGCA
Band lengths:
193-1191
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]