BtaINT0042120 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010179 | COL5A3
Description
collagen, type V, alpha 3 [Source:HGNC Symbol;Acc:HGNC:14864]
Coordinates
chr7:15776371-15776544:-
Coord C1 exon
chr7:15776491-15776544
Coord A exon
chr7:15776407-15776490
Coord C2 exon
chr7:15776371-15776406
Length
84 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CCCCTGTCTCTACCCCACAGGGT
3' ss Score
11.45
Exon sequences
Seq C1 exon
GGTTCTCCTGGCCCCATTGGCTCTCTGGGCCACCCTGGGCCCCAAGGCGTGGTG
Seq A exon
GTGAGTATGAGGGGTTTGTAGGGGTGGGGGAGTCACCCTGTTGGGCCAGCCAGGAGTCCAAGCCCCCCTGTCTCTACCCCACAG
Seq C2 exon
GGTCCTCCAGGACAGAAAGGCTCAAAGGGGTCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010179:ENSBTAT00000013440:62
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(27.4=100)
A:
NA
C2:
PF0139113=Collagen=FE(17.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTCTCCTGGCCCCATTG
R:
GGACCCCTTTGAGCCTTTCTG
Band lengths:
87-171
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]