GgaINT0011672 @ galGal3
Intron Retention
Gene
ENSGALG00000005797 | COL20A1
Description
NA
Coordinates
chr20:8847415-8847967:+
Coord C1 exon
chr20:8847415-8847492
Coord A exon
chr20:8847493-8847880
Coord C2 exon
chr20:8847881-8847967
Length
388 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
ATGTCTTGTTGTTTTTTCAGAGG
3' ss Score
9.18
Exon sequences
Seq C1 exon
TTCCAGCTGCAGTCATTGCAGGTTGTGTGCAACAGCTTAGGGGCGGAGGAGGACCGATGCTGTGATCTTCCTGCATTG
Seq A exon
GTAAGATGATGTGAGGTTCTCTGCTGGGTGGGATGAAGCTGGGCACGATGGCACAGGAGTGACACCGCAAATCTTTTTCATGGGCAAGAGGGAAACCACTTTTTTGTCATCTCTTGGGAATGTTACCTGGGTGTATCTTGGAGAAGGGAACCAAAGAGCATGTTTTGTCCCACCATGTCTGCTTCAAAAGGCAAAATCTCAACACAGCACATATCCCAACTGCCCTGAGCTCACCTGAGCCCCCTGGCAGCCCCACAGCTCCACTGCCACCTCCCAGCCCCAGGGCAGTGTCTGTGTTTTTTTTCCCCCAAGATTGACTTCTGAAGCGCTGCCATCACTACCTGTCATTCATCCCACTCTCACTGCTCATGTCTTGTTGTTTTTTCAG
Seq C2 exon
AGGGATGAGGAGAGCTGCCCCACCATAGCTCCTGCCTGCTCCTGCACTTCTGGCCGCCCGGGCTTGCCAGGTCCTCCAGGTCCCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005797:ENSGALT00000009312:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.517
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0139113=Collagen=PU(20.0=41.4)
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]