GgaINT0022932 @ galGal3
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
NA
Coordinates
chr12:9342573-9342743:+
Coord C1 exon
chr12:9342573-9342608
Coord A exon
chr12:9342609-9342686
Coord C2 exon
chr12:9342687-9342743
Length
78 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CACCTCTCTCCTGCATGCAGGGT
3' ss Score
8.37
Exon sequences
Seq C1 exon
GGAGACGTCGGGGCCGTGGGGCAGGAAGGAGACAAG
Seq A exon
GTGAGACCCCAGGGCTGGGGGGGGAGGAAGGCAGTGCTGTCCCCCCCCGGCTCACACCCACCTCTCTCCTGCATGCAG
Seq C2 exon
GGTGATACCGTTGTGGTGGAGGGGCCTGCTGGGGCGAGAGGCAGCAAGGGGGAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:86
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(18.3=100),PF0139113=Collagen=PU(7.8=50.0)
A:
NA
C2:
PF0139113=Collagen=PD(5.1=15.8),PF0139113=Collagen=PU(21.7=68.4)
Main Inclusion Isoform:
NA
Other Inclusion 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:
TGGGGCAGGAAGGAGACAAG
R:
TCCCCCTTGCTGCCTCTC
Band lengths:
73-151
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]