GgaINT0022919 @ galGal3
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
NA
Coordinates
chr12:9339808-9340002:+
Coord C1 exon
chr12:9339808-9339876
Coord A exon
chr12:9339877-9339966
Coord C2 exon
chr12:9339967-9340002
Length
90 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CTGTCTCCCCTCTCCCCCAGGGC
3' ss Score
12.74
Exon sequences
Seq C1 exon
GGCGTACCAGGACCATCAGGCCCTACCGGCCCCAAAGGGGAGCCAGGGGATGCAGGAGCACCGGGGCAG
Seq A exon
GTGAGTACTTCCTTGCAACTTCCCCTGCTCGCTGGGGCCAGGGGGTGACAACAGCCCCACTGACTGCTGCCTGTCTCCCCTCTCCCCCAG
Seq C2 exon
GGCATCGCTGGCCCTCCTGGTGCCAAGGGCGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:73
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(41.2=91.3)
A:
NA
C2:
PF0139113=Collagen=FE(17.2=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:
GTACCAGGACCATCAGGCCC
R:
CCCTTGGCACCAGGAGGG
Band lengths:
95-185
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]