GgaINT0050825 @ galGal3
Intron Retention
Gene
ENSGALG00000003923 | COL6A3
Description
NA
Coordinates
chr7:4828865-4829220:+
Coord C1 exon
chr7:4828865-4828927
Coord A exon
chr7:4828928-4829157
Coord C2 exon
chr7:4829158-4829220
Length
230 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
CTCTCCTTTCTTCTGCACAGGGC
3' ss Score
10.15
Exon sequences
Seq C1 exon
GGTACCAAGGGCGCGCTTGGCCAGCCAGGGCCAGCTGGAGAACAAGGCATGAGAGGACCACAG
Seq A exon
GTCAGTGAGAGAAAGCAAAATGTACGTCCTGTGGCAGCGTGCTGTTGCATTACCCCTTCCCAGGGCCTGGGCAGCGAGGACTGGTGGGACTGGTGTGCAGTTCCCAAGGCGTGATGTATTTGGAAGCCATCTCTCGGGTGCCGAAGAGTTTGCTTTCCCTCCCAATCTCTGGCTGTGCTGGTGTGTCTCTCCCCATGTGTGTTGACATCTCTCTCCTTTCTTCTGCACAG
Seq C2 exon
GGCCCACCTGGCCAGATTGGCACTCCAGGCATCAGGGGAGAGCAAGGCATCCCTGGGCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003923:ENSGALT00000006250:25
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(6.1=23.8),PF0139113=Collagen=FE(31.7=100)
A:
NA
C2:
PF0139113=Collagen=FE(31.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]