BtaINT0041328 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004582 | COL20A1
Description
collagen, type XX, alpha 1 [Source:HGNC Symbol;Acc:HGNC:14670]
Coordinates
chr13:54735057-54735543:-
Coord C1 exon
chr13:54735472-54735543
Coord A exon
chr13:54735093-54735471
Coord C2 exon
chr13:54735057-54735092
Length
379 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
CTCCTTTTCCTCCCTCTCAGGGA
3' ss Score
11.24
Exon sequences
Seq C1 exon
GGCTTCCAAGGTACTTCGGGGGCTAGGGGCAGCAACGGCGAGCGAGGACCCCCAGGGGCCGTGGGGCCCACA
Seq A exon
GTAAGTCCCCTCCCCACCCAGCCCAACAGCCAGGGGGGCTAGTCGTGTGCACTGATGCCCAGGGGTGCCCAGCAGCTGGTACATTTGTAAAGCTAGGCTGACACAAAGCTTAGAGCAGAGGGAGCCCTGGACTGCCCCCTGCCAAGCCCAAGACAGAGGAGGGGGACAAGTTGGGGTGGGGCTCCCCAACTTGGGCTCCAGGGGTCAGGGTGACAGCAGATCTGGCCTGCAGGCTGGGTGGGGCCTGAGGACAGGGAAACCTAAGTCAGCCGGCTGTCTCCCTCTTGCAGCAGCAGAGGTGGGTCCTCTGCTCTCTGGGGACTCCTGGGTCTCTGGGCAGCTGTGGGGTCCAGGCACTTCTCCTTTTCCTCCCTCTCAG
Seq C2 exon
GGACTGCCGGGGCCCAAGGGGGAGCGAGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004582:ENSBTAT00000065814:31
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:
PF0139113=Collagen=FE(39.0=100)
A:
NA
C2:
PF0139113=Collagen=FE(18.6=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]
SPECIAL DATASETS
- Pre-implantation embryo development