GgaINT0046109 @ galGal3
Intron Retention
Gene
ENSGALG00000002552 | COL3A1
Description
NA
Coordinates
chr7:581605-582093:-
Coord C1 exon
chr7:582040-582093
Coord A exon
chr7:581704-582039
Coord C2 exon
chr7:581605-581703
Length
336 bp
Sequences
Splice sites
5' ss Seq
CCAGTACGT
5' ss Score
7.19
3' ss Seq
TTCTTCTCTGTCTATCCCAGGGT
3' ss Score
10.18
Exon sequences
Seq C1 exon
GGTTTGCCTGGGATTCCAGGAAGTCCTGGAAGTGATGGGAAGCCTGGCCCCCCA
Seq A exon
GTACGTATACTGTGCATGTATTTTATGCTAGTCTGCCCGCTAGCCTTACTGTGATCCTGCAGCATGTCTCCTTGGTACATTGTTATCATAGTCAGATTAATTTTCTCTTGTTTGTTTGAATTTACTGGAGCAGTTCAGGTGCCGCTTCTTTGTAAGAGCTTTTTGCAGATCTTATTTTTCAATATTACTTGAAGTACAGCATATACAAAAGCTTGGTTGAAATCTAAAATACACGATAAATCGAAGTGTCTCTAGCCTGCTCTTTAATGATTCGTAGATATGTACTTATTTCACTTAACTGATGTCATATCTTCATTTCTTCTCTGTCTATCCCAG
Seq C2 exon
GGTAATCAGGGTGAACCTGGCCGTTCTGGTCCACCTGGCCCAGCAGGCCCACGTGGTCAGCCAGGTGTAATGGGTTTTCCTGGTCCAAAAGGAAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002552:ENSGALT00000004033:26
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=PD(4.5=16.7),PF0139113=Collagen=FE(25.8=100)
A:
NA
C2:
PF0139113=Collagen=PU(14.5=90.0)
Main Inclusion Isoform:
NA
Other Inclusion 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]