GgaINT0010856 @ galGal4
Intron Retention
Gene
ENSGALG00000005628 | COL9A3
Description
collagen alpha-3(IX) chain precursor [Source:RefSeq peptide;Acc:NP_990636]
Coordinates
chr20:8715117-8715996:+
Coord C1 exon
chr20:8715117-8715152
Coord A exon
chr20:8715153-8715951
Coord C2 exon
chr20:8715952-8715996
Length
799 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
ATTCTGTCGTCTGCTTTCAGGGC
3' ss Score
10.14
Exon sequences
Seq C1 exon
GGTCCTGCTGGTGTTATTGGTGCCAAAGGTAGCCAG
Seq A exon
GTAAGTGACACTGTCCTTCTTTCTGTGATGAGTTTCCTGCTGACAGGAGGCATGACAGTCCTGTCCTGCTGACAGGAGTGACACCAGCATTTCGCTGGGGCGGTCCCTGAGACCAATGAAGAGGATTCACTGTAGCCCCAGGGCTCAGCAGCCTCCTAGCCTCATTAATTTCATCTTTTACTCTCTGCTGCTTAGCTTCCATAGATGAATCTATCTCAGCGCTGAGCTTTTTGAGATAATTTTCATTAAATAAGTAAATTAGGTGGGTGCTTGACTTTATTCTTGCAGAAAATAAGTGATTTTCCAACAAGCATTGCTTGTTCTGTTTCCCAGCTTCAGTGTCTGTGTGTTCTCTGTTTTGTTGCTAAGGGAAAAGCCAACCTGTCCTCTGTTTGTCTTGAATTAACTTTCTCTCTCCAGCCATACAGTCACCATAACAGTGTTCGTTACCTGCTCTAATTGCCATGCAATAGGCAAGCTTTGCTGCACAGCACGTGGAGTGGTGTCAGAGCAGCAGTGTGCAATGGTTTGTGTTGCCTCCAGCGCCTTCCATCAGGCATCCAAGTGCCAACGTGTGGCGAGGGGCATCTCTGTCCTTGTGCAGGCTGCCTGCACCACGCACTGCCCTCAGCAGGGCAGCTCCTGGGCAGTGCTTCCTCTTGGGGGTGGTGGATAATAAGCTGCTAAGTGCCCCCGTCTCCCTTAGGAGCTGAGGTTGTTCAAGTCTCAGAGTGAGCCTTTTTGCCAGTAACCTGTGTGCGTTGTTAGGCGCTGTGTTAATTCTGTCGTCTGCTTTCAG
Seq C2 exon
GGCATTGCTGGAGCAGACGGTCTCCCAGGTGACAAAGGAGAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005628:ENSGALT00000009029:25
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:
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:
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]