GgaINT0044135 @ galGal3
Intron Retention
Gene
ENSGALG00000007090 | CPN1
Description
NA
Coordinates
chr6:23451682-23452107:+
Coord C1 exon
chr6:23451682-23451837
Coord A exon
chr6:23451838-23451924
Coord C2 exon
chr6:23451925-23452107
Length
87 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCG
5' ss Score
10.05
3' ss Seq
TTCCCTTCTGCTCTTCCCAGGTG
3' ss Score
11.19
Exon sequences
Seq C1 exon
GGCCCAGATGGCATTGGGTACTTGACGGGGAGGAACAATGCCAATGGTGTGGACTTGAACCGCAACTTCCCTGACCTCAACACGTTCATGTACTACAGTGGGGAAATCAGCGGGCCCAACCACCACATCCCACTTCCCGACAACTGGAAGAGCCAG
Seq A exon
GTACCGGCCTGGGATGCTGCAAGTGCTGCAGCATCCTCCTACAGGACCGACATGCTCATCGCAGCTCTTCCCTTCTGCTCTTCCCAG
Seq C2 exon
GTGGAGCCCGAGACATTGGCCGTGATCCAGTGGATTGGCAGCTACAACTTTGTGCTGTCGGCCAACCTGCACGGCGGCGCGGTGGTGGCCAACTACCCCTACGACAAGTCTCAAGACCAGCGGTTCCGGAGCCACCGGCGCACAGCCAACACTCCCACTCCTGATGACAAGTTGTTCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007090:ENSGALT00000011482:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.231 A=NA C2=0.246
Domain overlap (PFAM):
C1:
PF0024619=Peptidase_M14=FE(17.0=100)
A:
NA
C2:
PF0024619=Peptidase_M14=FE(20.0=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:
ATGGCATTGGGTACTTGACGG
R:
CTGGATCACGGCCAATGTCTC
Band lengths:
179-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]