BtaINT0025245 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015789 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:HGNC:23059]
Coordinates
chr3:14235507-14236095:-
Coord C1 exon
chr3:14235921-14236095
Coord A exon
chr3:14235635-14235920
Coord C2 exon
chr3:14235507-14235634
Length
286 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
CATTTGTACCTCCGCCCCAGGTA
3' ss Score
7.21
Exon sequences
Seq C1 exon
GGGTCGTCTTTCTCTACCGGGAGGGCTCTGCCCGCTACGCTTTCTCCTTCGCTGGGGCCCAGGAGGCCTGTGCCCGCATCGGAGCCCGAATCGCCACTCCGGAGCAGCTCTATGCCGCCTACCTCGGGGGCTATGAACAGTGTGACGCTGGCTGGCTGTCCGACCAGACCGTGAG
Seq A exon
GTGGGCTGGGGCTGTTGACCACGAATTTCTAGTTGTTTCTGAGGGGGCTATGGCTTCTGATTCTACCAGGGGCTGCCGGCTGCTGCCACAGGCGGGCCCTATAGGGCTCCCTGCCTGTGGGAGACGAAGTTGGTCTGCGGCGGGCGGGTTAGGACTGTGTGCTGGCGGGGATGCATTTCTGCAGAGCTGAGGAGACACTTGGCTGCACTGAAAGCAATGTGATTGGTGGGGGGCGGGGGTCACCACAGGACGGCTCCTGGTGAAGGCATTTGTACCTCCGCCCCAG
Seq C2 exon
GTATCCCATCCAGACGCCACGAGAGGCCTGTTATGGAGACATGGATGGCTTCCCTGGGGTCCGGAACTACGGAGTGGTCGACCCCGATGACCTCTATGATGTTTACTGTTATGCTGAAGAACTAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015789:ENSBTAT00000020965:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0019312=Xlink=PU(60.4=98.3)
A:
NA
C2:
PF0019312=Xlink=PD(38.5=84.1),PF0019312=Xlink=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCGTCTTTCTCTACCGGGA
R:
GTTCTTCAGCATAACAGTAAACATCA
Band lengths:
296-582
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]