GgaINT0125015 @ galGal3
Intron Retention
Gene
ENSGALG00000009060 | C9orf140
Description
NA
Coordinates
chr17:770574-771318:+
Coord C1 exon
chr17:770574-770696
Coord A exon
chr17:770697-771140
Coord C2 exon
chr17:771141-771318
Length
444 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
ATCTTCTCTTTCCAATGCAGGAG
3' ss Score
10.04
Exon sequences
Seq C1 exon
CCAGGGAACCCCACCTCAGCACTGAGCAGGCTGGCCCCCACTGCCCCTGCGGCATCCCCGGCCTCAGCAGGCACCCAGCAGGCCATCAACATGCTGAAGGAGCAAAACCGGCTTCTCACCAAG
Seq A exon
GTGAGCAGGGATGGTGGGGAGGAGAGCACTGAGAGGGAACCATCAGAGAAAGAATACGTGGCTGTGGAAAGTGATCCTTCAGCTTGGCCAACCTTGGTCATCCTGGAGATGGGCCATGGGCTGCGCTTCGAGCCCTTCCCTCTCACAACTGAGCGCCCCTCACGTGATGGGCTTGGGCTGTTTGCTGGGTATGGGACCATGGATGTGAACCTCATTGACCCTGCTGAAGGGAAAGGACTGTGACAAATGAGGACCACAAGAGGGTGCAGATGCTAAGGATGCCCTGGCCCAGATAGGCTCGCAGCAGGGGTTTAAGTTCTGACATCTGCAGATGGTGCTTTTGGGTCGCAGGGGGCACAGAGCATCTGGGCCCGGCTCAGGTCATGGGGACCTCAGGCACAGCACAGAGCTCTGAGCAGCATTTATCTTCTCTTTCCAATGCAG
Seq C2 exon
GAGGTGACTGACAAGAGTGAACGCATCACCCAGCTGGAACAGGAGAAATCTGCTCTGATCAAGCAGCTCTTTGAGGCACGTGCCCGCAGCAATCACGAAATGAACCAGCTGGACTCCACCTTCATCTAGCACCTGTCTCCCAGCACTCCTGGCCCCATATTGAGCTTCTCCAGGGGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009060:ENSGALT00000014746:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.951 A=NA C2=0.619
Domain overlap (PFAM):
C1:
PF041087=APG17=PU(38.6=65.9)
A:
NA
C2:
PF041087=APG17=PD(58.6=95.3)
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:
GAACCCCACCTCAGCACTGA
R:
ACCCCCTGGAGAAGCTCAATA
Band lengths:
296-740
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]