GgaINT0022938 @ galGal3
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
NA
Coordinates
chr12:9343581-9343820:+
Coord C1 exon
chr12:9343581-9343634
Coord A exon
chr12:9343635-9343766
Coord C2 exon
chr12:9343767-9343820
Length
132 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CCCCTGCCTTGCTCCTGCAGGGA
3' ss Score
12.2
Exon sequences
Seq C1 exon
GGTGAACGGGGCATGAAAGGAGCCTGTGGCCTCGATGGAGACAAGGGTGAGAAG
Seq A exon
GTGAGGGGGTTACCATCCTGCAGCCAGGACCTCAGCCGTGCAACGGGTTCACACAGACCCTGGTCACAAGGTCCCCCCTCGTGCCTGGAGGAGCTGCGGGGCTGAGGACTGACCCCTGCCTTGCTCCTGCAG
Seq C2 exon
GGAGAGCCGGGGCTGCCGGGGCGCTCGGGGCTGCCAGGAAGGAAGGGTGAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:92
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=PD(8.8=38.9),PF0139113=Collagen=FE(21.0=100)
A:
NA
C2:
PF0139113=Collagen=PD(3.7=16.7),PF0139113=Collagen=FE(25.8=100)
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:
GTGAACGGGGCATGAAAGGAG
R:
GGCTCACCCTTCCTTCCTGG
Band lengths:
106-238
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]