BtaINT0042111 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010179 | COL5A3
Description
collagen, type V, alpha 3 [Source:HGNC Symbol;Acc:HGNC:14864]
Coordinates
chr7:15779495-15779777:-
Coord C1 exon
chr7:15779724-15779777
Coord A exon
chr7:15779549-15779723
Coord C2 exon
chr7:15779495-15779548
Length
175 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
CTTCATTTCCCCTACCACAGGGT
3' ss Score
7.44
Exon sequences
Seq C1 exon
GGCCCCACAGGCCTCCCAGGAGACCTAGGCCCCCCCGGAGACCCTGGAGTTTCG
Seq A exon
GTGAGTGTGACCCCCTCTTCCTCAAAAGCCCAGCATATTCCCTATTCTGTCCCCAATCTCATCACAAACCTGAGCAAGGTTGATGAAGCAAAAAACCTCCACTTGCCTCCAAGCATCACCCCAACATTCTGCTGTGTCCTCACGACCCCTCCCAACTTCATTTCCCCTACCACAG
Seq C2 exon
GGTCAAGATGGCCCCCCAGGGGAGAAGGGAAACCCTGGAGATGTGGGGGGACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010179:ENSBTAT00000013440:54
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:
NO
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:
CACAGGCCTCCCAGGAGAC
R:
CCCCCACATCTCCAGGGTTTC
Band lengths:
98-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]