BtaINT0042068 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010179 | COL5A3
Description
collagen, type V, alpha 3 [Source:HGNC Symbol;Acc:HGNC:14864]
Coordinates
chr7:15800459-15800970:-
Coord C1 exon
chr7:15800887-15800970
Coord A exon
chr7:15800516-15800886
Coord C2 exon
chr7:15800459-15800515
Length
371 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GTTCCCCTCTGTCTCTTCAGCTG
3' ss Score
10.7
Exon sequences
Seq C1 exon
TTCCAGTTTGCAAGAGGCTCTCACAAAGGACCCCCAGTATCCTTCCAGCAGGCCCAGGCTCAGGCAGTCCTGCAACAAGCTCAG
Seq A exon
GTGAGGGGAGGATAATCCGGGGACTGTTGGAGGGTGGGGCTTCCCCAATGGCTCAGCGGTAAAGAATCTGCCTGCAATTCAGGAGATGTAGGTTTGATCCCTGGGTCGGGAAGATCCCCTGGAGAGGGGAATTGCAACCCACTCGGGTATTCTTGCCTGGAGAATTCCATGGACAGAGGAGCCTGGCAGGCTACTGTCTATGAGGTAGCATATAACTGAGCATGCGCGTCGGGAGGTACTGGGAGGACATTGAGAGAATGACAAAGATGGGAGACACTGAATAGTCAGGAGACAGGTGGATATTTAACTCTTGACGATGATTTTGTGGGGGTGTGGAAGACTTGAGGCTTTGTTCCCCTCTGTCTCTTCAG
Seq C2 exon
CTGTCTATGAAAGGCCCTCCTGGCCCGGTGGGGCTCACCGGACGCCCAGGTCCCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010179:ENSBTAT00000013440:15
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:
NO
A:
NA
C2:
PF0139113=Collagen=PU(28.6=94.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]