GgaINT0022880 @ galGal3
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
NA
Coordinates
chr12:9331377-9331584:+
Coord C1 exon
chr12:9331377-9331469
Coord A exon
chr12:9331470-9331548
Coord C2 exon
chr12:9331549-9331584
Length
79 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
ATCTCTGCCCTCCTCTCCAGGGT
3' ss Score
11.09
Exon sequences
Seq C1 exon
NATGGGCACACTGCTGGCTTTTTCACCTCGCAGGGTGATGGTGAGGAGGGATTCCCAGGGCCACCTGGCCGCCCAGGGGACCCTGGAGACCGG
Seq A exon
GTGAGTGTTGTGGCCGAGGCAGGGTGGGCAGAGCATTAACCCTGCTTAGGAGGTGACGTATCTCTGCCCTCCTCTCCAG
Seq C2 exon
GGTCCACGGGGACCTCCAGGCGAGCAAGGCAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(35.5=71.0)
A:
NA
C2:
PF0139113=Collagen=FE(17.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGGCACACTGCTGGCTT
R:
CTTCCTGCCTTGCTCGCC
Band lengths:
128-207
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]