BtaINT0040820 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000601 | COL11A2
Description
collagen, type XI, alpha 2 [Source:HGNC Symbol;Acc:HGNC:2187]
Coordinates
chr23:7311064-7311852:-
Coord C1 exon
chr23:7311775-7311852
Coord A exon
chr23:7311127-7311774
Coord C2 exon
chr23:7311064-7311126
Length
648 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
TCGCTTCCCCTTGGGGGTAGGAC
3' ss Score
5.62
Exon sequences
Seq C1 exon
TCCACTGAGTCTCTCTACTATGACTACGAGCCCCCCTATTATGATGTGATGACTACGGGCACCACCCCTGATTATCAG
Seq A exon
GTAAACTTGAGGGACCCCTTCCCTTGCCCTGTTCTCCCCACCAACCCCTTGCAAACATCTAAGACACGGTCCTCCCCTTCCCACTTTGGGGAGAGCCACCTTGTATCTAGATTAAGGGCGTGTGCTCACTGGCCCTCCCGTGTCTCTCCACTGCAGCGACCTCCAAGCCCCAACCACAGGGCTCCCCCTCCCCCCAGGGGGCGTCGGACCCCTCCCCGAAAGCCTGCCCCTCCTGCCAAGAGGTCAGCAGCCCGGCAGGCGTCCCCCTCACCAGGCCAGAGGCCTTCTCGAAGTGGAGGTTCCAGCCCAGCCCGGGGCCAGCCTCCCCTCTCCCGGCACCCAGCTCAGCAGGCAGCTCCCCCCACTGCCCGGGGCCCCCCCAGGACCAGAGGCAGCGGTTACCGGCAGGTAGAGCCGGGGCATCCAGATCTCTGCCCCCGAACCTCTCTGACCTCAGAGATTCACTCTCCCTAAACTGTACCCCCTCCAAAGGGGCTGCAAGATCTGAGATTGCCCCCACCCCCCAGCACAGACAGATGCTGCCCTCAGGACGGGCCAGGACGGGCTGCTGCTTGGCCTCCCTTACCGCTAACCTCTTTCCTCCTTCCCGCCCTCTGCTCCTCTCCCCTCGCTTCCCCTTGGGGGTAG
Seq C2 exon
GACCCCACCCCGGGTGAAGAGGAAGGAATCCTGGAGTCAAGCCCTTTGCCACCCCCTGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000601:ENSBTAT00000000793:6
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
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]