GgaINT0010851 @ galGal3
Intron Retention
Gene
ENSGALG00000005628 | COL9A3
Description
NA
Coordinates
chr20:8348650-8349374:+
Coord C1 exon
chr20:8348650-8348694
Coord A exon
chr20:8348695-8349320
Coord C2 exon
chr20:8349321-8349374
Length
626 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
GTTTGCTTTCTCCTCTGCAGGGC
3' ss Score
11.64
Exon sequences
Seq C1 exon
GGACTGCCTGGAAGAGCAGGGATTAAAGGCTCTAAAGGTGAACCA
Seq A exon
GTAAGTGAGTCAGTCTCTCTAATGATGGGCTCTGGTGGGAAAGCCATTAACCTGCGCAGCAAAAAGGTTCAGTGCCTGCAGGTGCACCCAGAGAGAGGGCTGACCCTCAGTGAGGGTGTCTGTGTTCCTGCCCAGGCTGTGTTCCTGCCACTGAGGAGGTATAGCAACAGAGGTGGCCCTGCTCTTTCTGAGGCAGCTGTTATATCTGGCTCACTGAACACGTACCAGGTGCATAGGAGTCTCACCAGTCATTTACTGAAGCTCAGAAGAGAAGTGTGCCCCTTTTTGTGAAGGTCCTGAGAGTGAGGTTCATCTTTGGAAAGAGAAGGACTGAGCGTTTCCTAGCAGTATTATCCCATCTTTCCTTCTGGAGACTTTCCCCCACTACCTCAGGGGAAAAGCTTCCATGGAGCGTTAGAGTGGCACCTGCATTATGTCCCAGCACAGGGCGTATCGGTCCCCCATTCTTTAAGTGTCCTTTGGATTTCTATTCTTTGTCCTGAAACTGTACAAGCTTAAAGCCGTTCTTATTTTCTGACTCCATTTTTCAGCTTGCTTCTCTAAATAGGACAGAGATGGCTCTCTGAAACTGTTCCTTCATGGAGTGTTTGCTTTCTCCTCTGCAG
Seq C2 exon
GGCAGTCCTGGAGAGATGGGAGAGGCGGGTCCCTCTGGAGAGCCAGGTATCCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005628:ENSGALT00000009029:20
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(14.7=100)
A:
NA
C2:
PF0139113=Collagen=PD(4.2=22.2)
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]