GgaINT0022853 @ galGal3
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
NA
Coordinates
chr12:9323776-9324207:+
Coord C1 exon
chr12:9323776-9323823
Coord A exon
chr12:9323824-9324057
Coord C2 exon
chr12:9324058-9324207
Length
234 bp
Sequences
Splice sites
5' ss Seq
CAGCTACGC
5' ss Score
1.84
3' ss Seq
CCCCTCCATGTCCCCCCCAGGAA
3' ss Score
10.06
Exon sequences
Seq C1 exon
GCTGTCCTGGCAGCCCGGGCCCGAGCCTCCCCAGGCCTTTATCCTCAG
Seq A exon
CTACGCCGTGCCAGGTGAGGGGACATGCCGTGCCCCGCAGGCACCTCTTTGGGGTAGCTGCGCGTGCTGCAGCACCTGGCGGCCCCTCCCTGTCCCTGGGCGCTGCCCTGGCCCCCGTCCCAGCCTCACCCCGTGCTCCCCACCCCTGGCACCAGCTGGCATCCCCAGGGCAGGGAGCTGTGCACACCCCTTCCCCGCCACACACCTGCCCGCGCCCCTCCATGTCCCCCCCAG
Seq C2 exon
GAATGCCCCAGGGCGAGGAGAGGAGCCTGGGGGCTGGTGCACTGTCGGCCACTCTCAGCAACCTGCGCCCCAACACCGAGTACGTGGTGACACTGAAGGCACGCTATGCACAGCAGCCTGCAGCCACCGCCAGCCTCACCGCGCGGACGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.647 A=NA C2=0.510
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(6.8=17.6)
A:
NA
C2:
PF0004116=fn3=PD(90.9=78.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCCAGGCCTTTATCCTCAG
R:
CTGCAGGCTGCTGTGCATAG
Band lengths:
144-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]