GgaINT0097665 @ galGal3
Intron Retention
Gene
ENSGALG00000009641 | COL1A2
Description
NA
Coordinates
chr2:23547310-23547541:+
Coord C1 exon
chr2:23547310-23547408
Coord A exon
chr2:23547409-23547496
Coord C2 exon
chr2:23547497-23547541
Length
88 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
ATTCTTTTCTTCCTCCATAGGGC
3' ss Score
11.99
Exon sequences
Seq C1 exon
GGTGAAATCGGACCTGCTGGTAATGTTGGCCCTACTGGTCCTGCTGGTCCAAGAGGAGAGATTGGACTTCCTGGTTCCAGTGGTCCTGTTGGCCCTCCC
Seq A exon
GTGAGTACCTTGCCAGTCTTTATCTATTGTCAGATGGATGCATTTGAGACTTCGAATTAAGCAGTATAATTCTTTTCTTCCTCCATAG
Seq C2 exon
GGCAACCCTGGTGCTAATGGTCTTCCTGGGGCTAAAGGTGCAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009641:ENSGALT00000015706:16
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(2.6=6.1),PF0139113=Collagen=FE(38.6=100)
A:
NA
C2:
PF0139113=Collagen=FE(16.9=100)
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:
GGTGAAATCGGACCTGCTGG
R:
GCTGCACCTTTAGCCCCAG
Band lengths:
143-231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]