BtaINT0025241 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015789 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:HGNC:23059]
Coordinates
chr3:14224411-14225336:-
Coord C1 exon
chr3:14225192-14225336
Coord A exon
chr3:14224602-14225191
Coord C2 exon
chr3:14224411-14224601
Length
590 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TGACTGTGTTCTCCCTGCAGTGT
3' ss Score
11.59
Exon sequences
Seq C1 exon
CTCTATGAGAACTGGAACCCTGGGCAGCCAGACAGCTACTTCCTGTCCGGAGAGAACTGCGTGGTTATGGTGTGGCACGATCAGGGACAATGGAGTGATGTTCCCTGCAACTACCACCTGTCCTACACCTGCAAGATGGGGCTGG
Seq A exon
GTGAGGGCAGGCAAGAGGGAGGAGAGGTGGGGGCCAGGGAATCCTGGAACTGATGTGTGTGCAGGAGGAGAGTGCAAAACTACACTGAGGAATCGGAAGTGTGCCCCAGGCTGTGAGCAAGGGAGGGATAACAAATTAGACAGGCTCACTAGGAACCCCTGCTCTTTTAAACGGTTCTATTATTTTATTTGGTTTTGGCCGCGCTGGGTCTTTGCTGTGCGGGCTGTGCTCCAGTTGCGGTGAGGGGGCCGCTCTCTACTGGCAGTGCAGGAGCTCTGTGGTGGCTTCCCTTGTTGCGAAGCACAGGCTCTTGGCGCCCGGCTTCCGTACTTGCGGCTCCTGGGTTCTGGAGCACGGGCTCAGTAGTTGTGGTGAACTTAGTTGCTCCACAGCATTTGGGACCTTCCCGGATGAGGGATCAAGCCCCTGTCTCCCGCCCGGGCAGGCGGTTCGCTGCCGCTGAGGCCGCAGGGAAGCCCTTCCACCGCCCCCTCTCTGTATGTCAGCTCGTGGCCTACTCCTCTCCTCCATCCCAGCTCTGGGGACTGCTCGAGCCGGGCTCCCAGTTCCTGACTGTGTTCTCCCTGCAG
Seq C2 exon
TGTCCTGTGGGCCCCCACCAGAGCTGCCCCTGGCTGAAGTGTTTGGCCGCCCACGGCTGCGCTATGAAGTCGACACAGTGCTTCGTTACCGGTGCCGGGAGGGGCTGACCCAGCGCAACCTACCATTGATCCGCTGCCAGGAGAATGGTCGCTGGGGGCTTCCCCAGATCTCCTGTGTGCCCCGCAGGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015789:ENSBTAT00000020965:12
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:
PF0005916=Lectin_C=PD(42.5=91.8)
A:
NA
C2:
PF0008415=Sushi=WD(100=89.1)
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:
TATGAGAACTGGAACCCTGGGC
R:
CGGGGCACACAGGAGATCT
Band lengths:
326-916
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]