GgaINT0046119 @ galGal3
Intron Retention
Gene
ENSGALG00000002552 | COL3A1
Description
NA
Coordinates
chr7:577584-577795:-
Coord C1 exon
chr7:577742-577795
Coord A exon
chr7:577638-577741
Coord C2 exon
chr7:577584-577637
Length
104 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
ACCATTTTTGTTCCTTACAGGGA
3' ss Score
11.09
Exon sequences
Seq C1 exon
GGTAACGTAGGTCCCATTGGTCCTCCTGGTCCTGCTGGCCCACCTGGAGATAAG
Seq A exon
GTAAAGCATCCTTCGTGGCGCTGTGTGGCACTGTAAGCAGCAGCCTTGCTGGCTGGTTCCTGGGAAGAAGAAGGAGTCCTGGTAACCATTTTTGTTCCTTACAG
Seq C2 exon
GGAGAGACTGGACCAGCTGGTGCCCCAGGTCCTGCAGGTTCCCGTGGTGGTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002552:ENSGALT00000004033:36
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=FE(24.3=100),PF0139113=Collagen=PU(15.5=61.1)
A:
NA
C2:
PF0139113=Collagen=PD(11.4=44.4),PF0139113=Collagen=FE(23.9=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:
GGTAACGTAGGTCCCATTGGT
R:
GGACCACCACGGGAACCT
Band lengths:
107-211
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]