GgaINT0046111 @ galGal3
Intron Retention
Gene
ENSGALG00000002552 | COL3A1
Description
NA
Coordinates
chr7:581223-581451:-
Coord C1 exon
chr7:581398-581451
Coord A exon
chr7:581277-581397
Coord C2 exon
chr7:581223-581276
Length
121 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
CTAGTTTTGTCTTTGTACAGGGT
3' ss Score
6.96
Exon sequences
Seq C1 exon
GGTGCACCAGGTAAGAATGGAGAAAGAGGCCCTGGTGGACCACCTGGAACTCCT
Seq A exon
GTAAGTTTTGTTCATAATTTCTTTTTAATAATATAGGAAAAAATATTAACTACTAATAATTTGGTTGATATTATAAAAATTATATTAACCCATAACCTTAGCTAGTTTTGTCTTTGTACAG
Seq C2 exon
GGTCCTGCTGGGAAGAATGGTGATGTTGGCCTCCCCGGTCCTCCTGGACCTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002552:ENSGALT00000004033:28
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=PD(7.6=27.8)
A:
NA
C2:
PF0139113=Collagen=FE(27.4=100),PF0139113=Collagen=PU(6.9=27.8)
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:
GGTGCACCAGGTAAGAATGGA
R:
GGGGAGGCCAACATCACCATT
Band lengths:
90-211
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]