GgaINT0097661 @ galGal4
Intron Retention
Gene
ENSGALG00000009641 | COL1A2
Description
collagen alpha-2(I) chain precursor [Source:RefSeq peptide;Acc:NP_001073182]
Coordinates
chr2:23713724-23714057:+
Coord C1 exon
chr2:23713724-23713768
Coord A exon
chr2:23713769-23714003
Coord C2 exon
chr2:23714004-23714057
Length
235 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
TAAGTTAATTTTTCTTTCAGGGT
3' ss Score
8.4
Exon sequences
Seq C1 exon
GGAGAACCTGGTGCCCCTGGTGAAAATGGTACCCCAGGACAACCT
Seq A exon
GTAAGTATTTAGTGCTGCTGTGGAAAATCTGATAGGTGTGGCTCAGCCAGCATTTTGGCCATTTATTTTCATCAGTGGCAGTCCAACTGGCTTGATGCTCTAATGTAACAGTACATGAATATTTGGAACGGAATTGCTTGGATGCAATCCACTTCACATAGAGACCTAGCAAGTGAAAAAAATCTATATATCTTTGTTTAGTAGACAGATCTAAATAAGTTAATTTTTCTTTCAG
Seq C2 exon
GGTGCTCGCGGTCTCCCTGGTGAGAGAGGAAGAATAGGTGCCCCTGGACCAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009641:ENSGALT00000015703:13
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(13.2=60.0),PF0139113=Collagen=PU(18.9=93.3)
A:
NA
C2:
PF0139113=Collagen=FE(21.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]