BtaINT0159602 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014906 | VCAN
Description
versican [Source:HGNC Symbol;Acc:HGNC:2464]
Coordinates
chr7:85782382-85782896:+
Coord C1 exon
chr7:85782382-85782564
Coord A exon
chr7:85782565-85782710
Coord C2 exon
chr7:85782711-85782896
Length
146 bp
Sequences
Splice sites
5' ss Seq
ACCGTAAGT
5' ss Score
10.43
3' ss Seq
CTTTCTTTCCTTCCATGTAGCAT
3' ss Score
10.68
Exon sequences
Seq C1 exon
TTGCTTGCGGCCAGCCCCCTGTTGTAGAAAATGCCAAGACCTTTGGAAAGATGAAACCTCGTTATGAAATCAACTCCTTGATTAGATATCACTGCAAAGATGGTTTCATTCAACGCCACCTTCCAACTATCCGTTGCCTAGGAAATGGAAGATGGGCTATGCCTAAAATTACCTGCCTGAACC
Seq A exon
GTAAGTGGTCCTTTAGAAAGAATGGACAACCATGCTATAACAAGTACTAGACACCCTCATTTTACGGCTACGGTATTGGTAGTTTAGGGTATGGAGCAAGTAATATTATTGTGTTTTCTTTTCTTTCTTTCTTTCCTTCCATGTAG
Seq C2 exon
CATCTGCATACCAAAGGACTTATTCTAAGAAATATTTTAAAAATTCCTCATCAGCAAAGGACAATTCAATAAATACATCAAAACATGATCACCGTTGGAGCCGAAGGTGGCAAGAATCAAGGCGCTGATCCCTAAAATGGCATACACATGTTTTCATCATTTCAGCCAAAGTCCTAACTTCTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014906:ENSBTAT00000019848:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.571
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTTTGGAAAGATGAAACCTCGT
R:
GGCTCCAACGGTGATCATGTT
Band lengths:
247-393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]