GgaINT0022876 @ galGal3
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
NA
Coordinates
chr12:9329712-9329977:+
Coord C1 exon
chr12:9329712-9329765
Coord A exon
chr12:9329766-9329908
Coord C2 exon
chr12:9329909-9329977
Length
143 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGT
5' ss Score
9.39
3' ss Seq
TACTTTTTCCCCTCATTCAGGGA
3' ss Score
9.31
Exon sequences
Seq C1 exon
GGACCACGGGGAACAACGGGGCATCCTGGCCCAAAGGGGGAAAAAGGCGAGCCG
Seq A exon
GTAGGTGCTGGGCAGAGGGCTACAGGGGGACATCTTATCCCTTCTACATCCTAAGTTTGGCACTGGGGAGAGCCGTGGCAGGGAGCATGGTGGCACTGATTTTCTTTTTTTTTTTTTTTTAATTACTTTTTCCCCTCATTCAG
Seq C2 exon
GGAGAGCCCGGAGTGATCGTGGATGGAGGACAGGGGTTGCCAGGACAGAAAGGGGAGCCGGGCACACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:30
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=FE(29.3=100)
A:
NA
C2:
PF0139113=Collagen=PD(8.6=21.7),PF0139113=Collagen=PU(27.6=69.6)
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:
GGACCACGGGGAACAACG
R:
CGGCTCCCCTTTCTGTCCT
Band lengths:
114-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]