BtaINT0025242 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015789 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:HGNC:23059]
Coordinates
chr3:14223569-14224601:-
Coord C1 exon
chr3:14224411-14224601
Coord A exon
chr3:14224088-14224410
Coord C2 exon
chr3:14223569-14224087
Length
323 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
TGAGTGTGTGTCTTTCCCAGGCT
3' ss Score
9.06
Exon sequences
Seq C1 exon
TGTCCTGTGGGCCCCCACCAGAGCTGCCCCTGGCTGAAGTGTTTGGCCGCCCACGGCTGCGCTATGAAGTCGACACAGTGCTTCGTTACCGGTGCCGGGAGGGGCTGACCCAGCGCAACCTACCATTGATCCGCTGCCAGGAGAATGGTCGCTGGGGGCTTCCCCAGATCTCCTGTGTGCCCCGCAGGCCT
Seq A exon
GTGAGTGTCAGGAGGAGAAAGGTGGGAGACACTAGCCCATATTGCCTTGGGCTCTCCTAGCTCTGCCCATCGCTGGCTAGGTAAACTTGGAGTCATCACTACCGCTCTCTGGGGCACAGAGGAGGTGGGCTGAATGCTCTTGGGGTCCCCTTCAGCGCTGCTGTCTGAGAATATGCAGCCACAGTCTGGGCTCTTAAGGGCTGAGCCAGGGAGAGTATTTTGATGAGATCAGAGGTCAAGGAGCAAGAACAGGAGAGGGCAGACTCTGAGAAGAGAAAAGACAAGGAGCCCAAGGGTGGAGGGTGAGTGTGTGTCTTTCCCAG
Seq C2 exon
GCTCGAGCTCTGCGCCCAGTAGAGGCCCAAGAAGGACGTCCGTGGAGGCTCGTGGGGCACTGGAAGGCACGGCTGAATCCCTCTCCCAATCCTGCTCCAGGTCCCTAAGGGGCAAAGCCCCAGGCACTGCCCTCTGCCACCAAGCCTCCCTAGACCCATGCTCTCCACCACGGGAAGTGACAGCATGAGAGGGGTGCAGCTGAAGTCCACATGGTAGTGCCCAGAGGGGCTTCTGGGAAATACTGGGTTGGCCAAAAATTCGTTTGGCTTTTTCTGTAACATCAATATCTGGGTGTCTCCAGTCCTGCCTTAGGCCCTCTCCCTCCTATTCTGGGCCTCAGGGCCTTGAGTAGGTCTCTAAGTGCCTCAACTGCCCTCTCCTTGCCAGCCATCCTGTCCCCTCCATTCCCCTGGAGGCCCCTGTACCCACTCATTCTGTTTCCCAAGAGAATGGGTTTGCAGGATGGGGTACCTGTAAAACAAGCAGAAAATAAAGCTGCATTTGAGCCCAAGCAAGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015789:ENSBTAT00000020965:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.314
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=89.1)
A:
NA
C2:
NO
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:
GAAGTCGACACAGTGCTTCGT
R:
GGGCACTACCATGTGGACTTC
Band lengths:
348-671
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]