GgaINT0010832 @ galGal3
Intron Retention
Gene
ENSGALG00000005628 | COL9A3
Description
NA
Coordinates
chr20:8327716-8329034:+
Coord C1 exon
chr20:8327716-8327821
Coord A exon
chr20:8327822-8328965
Coord C2 exon
chr20:8328966-8329034
Length
1144 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
ATCCCCCCCGATCCTCTCAGAGA
3' ss Score
6.64
Exon sequences
Seq C1 exon
GCTGCCCAGGAGTAAAAAGGAGAGACAGAGCCTGGGCACGATGACTGTATTCCCCACTCTTGGGCTACTCTTCCTTTGTCAGCTATTAGCCACAACATCAGCTCAG
Seq A exon
GTAAGAATTTTCACGTTGGTTTTATGTTCAAGAAATGAGTGCATACGGGGAAGATATATTGCATATATTTGAAGTGTGCACTCTCCGTGCCTTGCAAGGAGCTGTTTTCATACCTGCATGAGTAGGCTTTCACTCTGTGTCCTTGTGTGCAGGAGCTGCTGCTTTACCCTTTCTGTGCAACTATTGTTTTATTTTCAATTAGAGCTTCAAGAGATAAAGTCCTAGGAAAGGAGGAGCTGTTGTTATAAGAGAAACAGTTTTCTTTCATAGTGAAACAACGAGGTGCCCATGAGACTGGGATCTCCTGATCTGGCTCTCCATGAGTCAGAGAATGTTTTATTCTCTCCCTCTGAGTTTTTAAAGCTTCGCATTTATGAAATACCGTATTTAATCCTTATTCACTTTCCTTGTGAAGCTATATTAAACTTCCCTATGTGGTGTTAATATTTTTGCCTGGAGAAATAACTCCTCAGTGAGTTTTTTTTTGTTGTGCCAGTGAGGAATTTTTGCAGTCTGGCTTGGAAATTCAGAGCTGCCCTCATCTGCTGTGAGCAGAGCTGCTTCCACAATGAAACCTTTGTTTTGCCAATGCTAAAGCAAGTTGCTCTCTGGAGTCCTCTCAATACAGAAGTCATTTATCAGACCTTTCTTTCCTTCCCCCAACCTTACACATCCAAAATCCCAGATTTTCAAATGACATCCTGCTCAGAGAGGAGATTTTTTTTCCCTTTCTTGTTCTGACCTCAGCAGTGTCCATCTGTCTCCATCACCCCCATCAGGCTGGGACTGAATGCATTTTTGATGCTACACATTATCACCTATTTTCCATGGGCCCTACATTTCCCCCTCTGCCCCTTAAGGATCATTTCTATAGGCAGTGAGGAACACAGCCTGTACAGCCGAGACCATTTGCTTCCCATCTCTCCTTCCCCATCTGTTAAAAGGGCTGGGGACCCTGAGCTGTACTCAAAAGTATTTTCCAAAGAGCCTTGCTTTGAGCTCCTCCAAGTTTGCCCAGGATGCTGAGTTCCACAGCTATTTCACCTCATGGGGCACCGCAACAACTGCTTTCTTATTTAACTTGTGTGTTTATTCTGATGGAAAAATAATCTTTCTTCCTCTTCATCCCCCCCGATCCTCTCAG
Seq C2 exon
AGAGTAGGACCACAAGGCCCTCCTGGACCACGAGGACCCCCTGGACCATCTGGCAAGGACGGCATAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005628:ENSGALT00000009029:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.364 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(0.1=0.0)
A:
NA
C2:
PF0139113=Collagen=FE(37.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
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]