GgaINT0010859 @ galGal3
Intron Retention
Gene
ENSGALG00000005628 | COL9A3
Description
NA
Coordinates
chr20:8355335-8356158:+
Coord C1 exon
chr20:8355335-8355481
Coord A exon
chr20:8355482-8356103
Coord C2 exon
chr20:8356104-8356158
Length
622 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
GATTTCTCTGTTAATTGCAGGGC
3' ss Score
8.26
Exon sequences
Seq C1 exon
CCAGGAAAAAGAGGAGAACTGGGTCCAAAAGGTGCTCAAGGACCCAATGGGACAGCTGGAGCTCCAGGGATCCCAGGACACCCAGGGCCCATGGGCCATCAGGGGGAGCAGGGCGTTCCTGGCATCACAGGCAAACCGGGGCCTCCT
Seq A exon
GTAAGTATTGTCTGCTTCTGTGGTGCATTTGTTCACTGCACTGAATGGAAGGATTGCAGGTTTTGGATGCGTGTTCAGAAAAGAAAGTGGCATCCTGCATTTGAGCAGACAAAAGTAACCGTGCAGGCAAGCTAGCAGTCTTGCATCAGGAGTTTTGCAGTGGATAAAAACCGGTGGTTTGCAGGCTTCAGAATTGCAATCTTCCCCAATGTTTACCTTGGAGAATGAATCTTCTCTCATTGACATACAGATTGTGTCCATTGCTGTTGTCATTACAGAAGTGAGTTAGAAACTGCTCATTTAAAAATACAGCTCCTCCTCAGTGCTCCAGATGTCAGACCTCTATCCTTGGTCCAGGCTCACACTGTGGCACGTAGGTGAGGCCCAGATTCCATAGCTGCCCTGAAATGCTAACGTTAATCTCTGCCATTTATATTGTGACACAGCTTCTAAATTGAAGCTGCCCCCTTCTGAAGAGGGGGGGGAAAAAATCTCATTTTCATGCAGAATCCTGTGCTCCTTACTGAGCTGCTGGAAGTGAGTTTTGAGTCATGATGTATCTGCCAGTTATTATTATCAATAATATGGTTTGTATAATGCAGGATTTCTCTGTTAATTGCAG
Seq C2 exon
GGCAAAGAGGCCAGCGAGCAACATATAAGAGAACTCTGTGGGGAAATGATAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005628:ENSGALT00000009029:28
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(76.2=100)
A:
NA
C2:
PF0139113=Collagen=PD(7.9=26.3)
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:
CCAGGAAAAAGAGGAGAACTGGG
R:
CGTTTATCATTTCCCCACAGAGT
Band lengths:
202-824
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]