BtaINT0025239 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015789 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:HGNC:23059]
Coordinates
chr3:14225699-14226543:-
Coord C1 exon
chr3:14226385-14226543
Coord A exon
chr3:14225782-14226384
Coord C2 exon
chr3:14225699-14225781
Length
603 bp
Sequences
Splice sites
5' ss Seq
ACAGTGGGC
5' ss Score
-0.09
3' ss Seq
TCTCTGCGGTTGTCCCCCAGATC
3' ss Score
10.84
Exon sequences
Seq C1 exon
GCCTCCACTTCTGCAGCCCCGGTTGGGACGCCTTCCAGGGTGCCTGCTACAAGCACTTTTCTGCCCGAAGGAGCTGGGAGGAGGCGGAGAACAAGTGCCGGATGTACGGCGCGCACCTGGCCAGCATCAGCACGCCGGAGGAACAGGACTTCATCAACA
Seq A exon
GTGGGCTGGGGACAGGGAGGGAGGCGACCCTCGCCACCTGTTCTCTCATCCACACATTCCCTCACTCATCAGTCAGTCAGTTAAAGAGTGTGCTATTAACTCCCTTATACGTTCATTCAGGTACTCACTACTTGGTTTACCTCATCCATTCATTCACTTTTCCTTCCTGTCTCCCTCCTTCCCACTCCACACGTGGGCAGTGGGGCTTCTGGCAGAGGAGGGCTGAGAAGTACGCAGAAAACACACCTGCATAAGCCTGGTGGTTCCTTGGGGGCTCGTTTATAATCGCTCCCCACCTCCCTGGCTCTCCTGCCTCCATCTACTCTCCCCGACTCTGGCGCTGTTGAAAGTTTTTACTTTTTCCAGACTTTCCCTTTTCTAGCCCTAGTGGTATTTTTCCTCTTCCTTCACCCCTACGCCCCTGTCTTCCTTCCTGCCGTGTGCAGAGGTTGGAGGGAGAAATAAGGATACCGGGAAGGGTGGATTTGGGGCTGCGGGGACTTGGCCCGCTAGCGCCCACAGACCGCTCAGTGACGGGGAATGGCCGCCCTCTGCTGGCAGCAAAGCTCACTGCACACTTTCGTCTCTGCGGTTGTCCCCCAG
Seq C2 exon
ATCGATACCGGGAGTACCAGTGGATCGGGCTCAATGACAGGACCATCGAAGGGGATTTCCTGTGGTCAGATGGCGTCCCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015789:ENSBTAT00000020965:10
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=PU(30.2=59.3)
A:
NA
C2:
PF0005916=Lectin_C=FE(25.5=100)
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:
GCCTCCACTTCTGCAGCC
R:
GGGACGCCATCTGACCACAG
Band lengths:
238-841
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]