GgaINT0022849 @ galGal3
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
NA
Coordinates
chr12:9320196-9320607:+
Coord C1 exon
chr12:9320196-9320354
Coord A exon
chr12:9320355-9320443
Coord C2 exon
chr12:9320444-9320607
Length
89 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGA
5' ss Score
6.77
3' ss Seq
AGCCCCATGTCCCCCCACAGATG
3' ss Score
8.8
Exon sequences
Seq C1 exon
GAATCAAGAACGCCGACCGTCAGGAGCTGATCCGCGTGGCCTCACTGCCTACTGACTCCTTCTTCTTCTATGTGGGTGACTTCAAGCTACTGGGGACGTTGGTGCCGCTGATGACACGCAGGGTGTGCACAAGCTCAGGGGGCACTCTACGTACCCCTG
Seq A exon
GTAGGAGACCTTCAAAAGAGGACATGGGAGCTGCCTTAATGCCTTCTCCCCATGCACCCCGGAGCTGACAGCCCCATGTCCCCCCACAG
Seq C2 exon
ATGGACCAGGCCACTCTGGCCCCTCCAACCTGGAGGTCCTGGAGCACGGCCCCGATGTGCTGCGCGTCCGCTGGAGCCCGGCCAGCGGCCCCGTCACCGGCTATAGGGTGCAGCGTGTCCCACTGACGGGGCTGGGGCAGCCGCTGGCAGCCGAGCGGCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.185 A=NA C2=0.364
Domain overlap (PFAM):
C1:
PF0009223=VWA=PD(29.4=68.5)
A:
NA
C2:
PF0004116=fn3=PU(57.0=89.1)
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:
CCTCACTGCCTACTGACTCCT
R:
GTGCTCCAGGACCTCCAGG
Band lengths:
167-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]