GgaINT0087017 @ galGal3
Intron Retention
Gene
ENSGALG00000011136 | CAPN9
Description
NA
Coordinates
chr3:42385707-42387227:+
Coord C1 exon
chr3:42385707-42385775
Coord A exon
chr3:42385776-42387148
Coord C2 exon
chr3:42387149-42387227
Length
1373 bp
Sequences
Splice sites
5' ss Seq
ATAGTAGGT
5' ss Score
4.07
3' ss Seq
ATCTGCTCCTTTCATAACAGAAT
3' ss Score
7.88
Exon sequences
Seq C1 exon
ACCAGTGGCAACGGGAAACTGGAATTCAGTGAGTTCAAAGTTTTCTGGGAAAAACTGAAGAAATGGATA
Seq A exon
GTAGGTGACATTATCCACTGTATTTGTTTCTCCATGTTAGTAGCTATTTCATGCCTAGCTTATTATGTATACGCAGACAAAAATGCAGAATGTTTATAAGCCAGAAATTTTAACTCAAAACAAATGTTTTAAAAGTATACTGCTTGTTTTGGATCATCAAAGACATCCTTAGCTTTCCATGATGCTAAACCTTAATGGTTTTCTGGAAATAACGGAGATTTTTATAAGGAAATCAAGTATGTTTGGGACAAAGAATGTAGTGGGCGCTACCAAGGAATCCAATCAAAATGAAACTTAAGGAGTTTCCATAACTGATGTACAGAAGAGAAAAATGATGGTTCATCACTAGCAGGAAACAATCATCTCATAAGACACTGCATTTCCATTATTGATCTCTCAGTAGTCAAAAGTACTGAAGTCTGGGAGAGTTGATTCCAATTTTAAACACATTTCCCTGCCACTGTATACAGCAGTAAAAAGAAGCAGACTTTCAGAATCAAGGCACAGACTGAATATTCAAATAAAGGCATCATAATTGCTTCCTCATGGTCATCAATAGTTGTTTTCTGAATTCATACTTCACCCAAGCATTCAAAATATGCAGCTCTCTGCTTCTTGTCTGTGCCGTCAGAAATGGCAAACACTTATTCTGGGTCCTAATGTCATACCTCCTTTATCAAAACATGCATTGTTTTTAATGGGGAAGCTTGAGAAACTCTTGTCTTCTGTAAGAAGATTGCACATTTATCTGATAGAAAATTTCAAACTGAACATGAAAACAGCTCTGTTTAACTCATATTCTAAGGGAGATCTGTGTTTGTCATCTCATTAAAAGGATGGATTTGAACTCCAACTTAATCATTTAATACTTAGGTCAAAATTAAAACCAGTTGCACCAGGTATACCATGAGTATTTAGAACCTTTCTATCCACAAGCAAATGAGTAAAGGATAATCTCAATTTCTTGTTAAACAATTTGTTTCTACCTTCAGGATTATAGAGAAAAACATGAAAAGAGATTCAGGATTCTGCCTTATGAGAAAGAAGTTAGAAGGCAAATAAAAATACATCCTTCTCAGATAAAATTACTTCTTAAAAATCATAGAATTCTTTTTATGAAGAGCACTTCGTTATCTCTGAATGCTTGGGTTTGGCAGTACTTGTTTTAAGTTTCACAACAGCCTATTCATATGACAGGGAATTGGGTCCCAGATTTTCTTTTCAGTTACTGCAGATCAAACTAGATCTAAAGTCTTGACAGCTTTCTTGAGCGCTTATGCCACACAGAGATAAACACCTTGCCTTTGCATGCCATTTCTGCTCTCCCTTTCATGTGGAAATACTGAACTTTCCATCTGCTCCTTTCATAACAG
Seq C2 exon
AATATCTTTCTTCGATTTGACTTTGACAAATCTGGCTCCATGTCCTCCTATGAGCTTCGCAGTGCTCTCAAAGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011136:ENSGALT00000018152:16
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:
PF0003627=EF-hand_1=PD(62.1=78.3),PF134051=EF-hand_6=PU(6.1=8.7)
A:
NA
C2:
PF134051=EF-hand_6=FE(78.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]