GgaINT0039352 @ galGal3
Intron Retention
Gene
ENSGALG00000005180 | COL11A1
Description
NA
Coordinates
chr8:12014191-12014434:+
Coord C1 exon
chr8:12014191-12014298
Coord A exon
chr8:12014299-12014380
Coord C2 exon
chr8:12014381-12014434
Length
82 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
AAATTTTTTATTTTCTCTAGGGA
3' ss Score
8.77
Exon sequences
Seq C1 exon
GGTGAACCTGGTGCAGAAGGAGCTCCTGGAAAAACAGGTCCAGTTGGTCCTCAGGGACCAGCAGGAAAACCTGGCCCTGAAGGTCTCCGGGGCATTCCTGGCCCTGTG
Seq A exon
GTGAGTAAACTGAGCATATAGTATTTTAAGCATTGCATTTACTGCATATTCTCCAGTAAAGCAAATTTTTTATTTTCTCTAG
Seq C2 exon
GGAGAACAAGGTCTACCTGGAGCACCAGGCCAGGATGGCCCTCCTGGGCCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180:ENSGALT00000008321:56
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=PU(41.6=88.9)
A:
NA
C2:
PF0139113=Collagen=FE(20.2=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:
GTGAACCTGGTGCAGAAGGAG
R:
ATCCTGGCCTGGTGCTCC
Band lengths:
143-225
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]