GgaINT0044134 @ galGal3
Intron Retention
Gene
ENSGALG00000007090 | CPN1
Description
NA
Coordinates
chr6:23451347-23451837:+
Coord C1 exon
chr6:23451347-23451543
Coord A exon
chr6:23451544-23451681
Coord C2 exon
chr6:23451682-23451837
Length
138 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
CAACGCCCTTTGCCCCACAGGGC
3' ss Score
10.11
Exon sequences
Seq C1 exon
TGGAGCCAGAATTCAAGTACGTGGGGAACATGCACGGGAACGAGGTGCTGGGCCGTGAACTGCTGCTGCAGCTCTCCGAGTTCCTATGTGAGGAGTACCGGCGGGGCAGTGAGCGGGTCACCCGGCTGCTGCACGACACACGCATCCACATCATGCCTTCCATGAACCCCGACGGGTACGAAGTGGCTGCCAAGCAG
Seq A exon
GTACCAGGCAAGCGAGCGCTGCTTCCAGATGGTAGGGACAGAAAAACCCTACAAAATGGGGGGCTTCTGAGGGTCTGCTTTGCTGTGGCAGTGCTGCCCCACTTTATTCTCACCCCTACAACGCCCTTTGCCCCACAG
Seq C2 exon
GGCCCAGATGGCATTGGGTACTTGACGGGGAGGAACAATGCCAATGGTGTGGACTTGAACCGCAACTTCCCTGACCTCAACACGTTCATGTACTACAGTGGGGAAATCAGCGGGCCCAACCACCACATCCCACTTCCCGACAACTGGAAGAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007090:ENSGALT00000011482:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.231
Domain overlap (PFAM):
C1:
PF0024619=Peptidase_M14=FE(21.7=100)
A:
NA
C2:
PF0024619=Peptidase_M14=FE(17.0=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:
AAGTACGTGGGGAACATGCAC
R:
GGAAGTTGCGGTTCAAGTCCA
Band lengths:
253-391
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]