BtaINT0040795 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000601 | COL11A2
Description
collagen, type XI, alpha 2 [Source:HGNC Symbol;Acc:HGNC:2187]
Coordinates
chr23:7300258-7300575:-
Coord C1 exon
chr23:7300522-7300575
Coord A exon
chr23:7300312-7300521
Coord C2 exon
chr23:7300258-7300311
Length
210 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CTCCTCTCTTTCTCTCTCAGGGC
3' ss Score
12.58
Exon sequences
Seq C1 exon
GGTCCCCCCGGGAAGGACGGGCTGCCAGGACACCCAGGCCAGAGAGGAGAAGTG
Seq A exon
GTGAGTGGTGCTCTGGTGCCTGCAGACCCCATCCCCGCCCCTCGTCCTGTCTGGAAGGCCCCCAAGGAAGGGTCTCCTCGGAGTGGCCCCTATCCTAATGCTGCTCATACCGCAGCCAAGGACTCGGTGGTGACCCGGGAGCCTGGGGTCCATGCCGTGTCCATGCCAGACTGTGTGTTCCAACCCCCCTCTCCTCTCTTTCTCTCTCAG
Seq C2 exon
GGCTTCCAAGGGAAGACCGGCCCCCCTGGCCCCCCAGGAGTGGTGGGACCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000601:ENSBTAT00000000793:37
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(2.2=11.1)
A:
NA
C2:
PF0139113=Collagen=FE(18.9=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:
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]