BtaINT0040769 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000601 | COL11A2
Description
collagen, type XI, alpha 2 [Source:HGNC Symbol;Acc:HGNC:2187]
Coordinates
chr23:7306459-7306865:-
Coord C1 exon
chr23:7306779-7306865
Coord A exon
chr23:7306516-7306778
Coord C2 exon
chr23:7306459-7306515
Length
263 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
3' ss Seq
GTCTCCTCTGCCCTCCCTAGATG
3' ss Score
10.56
Exon sequences
Seq C1 exon
TTCCGGTTCGGCAGTGGTGGGGGTGACAAGGGCCCTGTGGTGGCAGCCCAGGAGGCCCAGGCCCAGGCGATTCTGCAGCAGGCACGG
Seq A exon
GTAAGTAGGGCTAGGGGTCTTGGGGGGGCATGGGAGGGGTGTGGTAGGTGGAGGAAGGCACTAGGAGGGGTTGGAAAGGTAGGTCGGTGTGACTGTAGGGCAGGGAGAGGTCTGGGTTGGATTGGGGGCTGACATGGAGGTTGAGGACGATCAGGGCAGCGGAATGAAGGTCAGGGAAGAAGGGTAAATCTGGGAGGTGACCCGGAGTCTGGGGTGCTCCTGCTGCCTGTGCTCAGCTCTGCCGTCTCCTCTGCCCTCCCTAG
Seq C2 exon
ATGGCCCTCCGAGGACCCCCTGGCCCCATGGGATACACAGGCCGCCCTGGCCCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000601:ENSBTAT00000000793:13
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(25.8=84.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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]