BtaINT0025244 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015789 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:HGNC:23059]
Coordinates
chr3:14235921-14236754:-
Coord C1 exon
chr3:14236380-14236754
Coord A exon
chr3:14236096-14236379
Coord C2 exon
chr3:14235921-14236095
Length
284 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
GGGTCCTCTCTGCCCCTCAGGGG
3' ss Score
7.76
Exon sequences
Seq C1 exon
AGGACAGGGCCTTCCGCGTGCGCATCGCGGGCGACGCGCCGCTGCAGGGCGTGCTGGGCGGCGCCCTCACCATCCCATGCCACGTTCACTACCTGCGGCCGTCGCCGAGCCGCCGGGCCGCGCAGGGCTCCCCGCGGGTTAAGTGGACCTTCCTGTCCGGCGGCCGGGAGGCCGAGGTGCTAGTGGCGCGGGGCCTACGCGTCAAGGTGAGCGAGGCCTACCGGTTCCGCGTGGCACTGCCTGCTTACCCGGCGTCACTCACCGACGTCTCCCTGGTGCTGAGTGAGCTGCGGCCCAACGACTCAGGCATTTACCGCTGCGAGGTCCAGCACGGCATCGACGACAGCAGCGACGCGGTGGAGGTCAAGGTCAAAG
Seq A exon
GTGAGAGGTCGGAGATGGAGAGGGTTCCCGGAGAAGGGGAGGGGAGCCCACTGTGTGGGACGGAAGCAGACGCCTAGAAGACGCAGACCGAACTGGAAAAGGAGTTTACCTCCTTTCTTTCTTCAGGCGGAGGAAAATTCTACCCACAGTCTAAATTAAGTCCCTCATGCTGTAGAGTGAGCACAATCTGGACTTTACCCTTTGTCTACAGGGGAGTGACAAGGAGAGTAAGGGGAAGTCAGTGTGCTGGGTGATCCCGCCTCAGGGTCCTCTCTGCCCCTCAG
Seq C2 exon
GGGTCGTCTTTCTCTACCGGGAGGGCTCTGCCCGCTACGCTTTCTCCTTCGCTGGGGCCCAGGAGGCCTGTGCCCGCATCGGAGCCCGAATCGCCACTCCGGAGCAGCTCTATGCCGCCTACCTCGGGGGCTATGAACAGTGTGACGCTGGCTGGCTGTCCGACCAGACCGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015789:ENSBTAT00000020965:3
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:
PF0768612=V-set=PD(97.6=98.4),PF0019312=Xlink=PU(0.1=0.0)
A:
NA
C2:
PF0019312=Xlink=PU(60.4=98.3)
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:
CGGGTTAAGTGGACCTTCCTG
R:
CCAGCGAAGGAGAAAGCGTAG
Band lengths:
296-580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]