GgaINT0050830 @ galGal4
Intron Retention
Gene
ENSGALG00000003923 | COL6A3
Description
collagen alpha-3(VI) chain precursor [Source:RefSeq peptide;Acc:NP_990865]
Coordinates
chr7:4791518-4791721:+
Coord C1 exon
chr7:4791518-4791553
Coord A exon
chr7:4791554-4791658
Coord C2 exon
chr7:4791659-4791721
Length
105 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAA
5' ss Score
6.82
3' ss Seq
TTCTGTTTGCCCCCATCCAGGGT
3' ss Score
8.2
Exon sequences
Seq C1 exon
GGAGAACGTGGCTTTGTTGGCTACCCAGGACCCAAG
Seq A exon
GTACAACACAGCCCATGAACTATGGGTTCATTTTCCAATCAGTGTAGCCAAGACCTGAGGACCTGTGCAGGTTGAGAGCTACCATTTCTGTTTGCCCCCATCCAG
Seq C2 exon
GGTGGACCTGGTGACCGTGGTGGTGCTGGAGGCCCCGGACCTAAAGGAAACAGAGGCCGTAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003923:ENSGALT00000006250:30
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAACGTGGCTTTGTTGGCT
R:
TCTACGGCCTCTGTTTCCTTT
Band lengths:
98-203
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]