BtaINT0012510 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016158 | ACAN
Description
aggrecan [Source:HGNC Symbol;Acc:HGNC:319]
Coordinates
chr21:20865291-20865936:+
Coord C1 exon
chr21:20865291-20865449
Coord A exon
chr21:20865450-20865853
Coord C2 exon
chr21:20865854-20865936
Length
404 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TACCCATGCCCTTTCTCTAGACA
3' ss Score
7.77
Exon sequences
Seq C1 exon
ACCAGAAGCTGTGCGAGGAGGGCTGGACCAAGTTCCAGGGCCACTGTTACCGCCACTTCCCCGACCGGGCAACCTGGGTGGACGCTGAGAGCCAGTGCCGGAAGCAGCAGTCACACCTGAGCAGCATCGTCACCCCCGAGGAGCAGGAGTTTGTCAACA
Seq A exon
GTGAGTGCAGTGGGGCCTTAGGGGCCCGAGGGGAATGGTCACGCAAGCCAAGGGCCTCCCTGGCCAGCAGTCAGTGGACTTGGGCCCAGTCAGGGCGGAGAGGGAGGGAAAGGGGGCATTTCCACAGGCTGAGGGGCCAGTGGTTCTGACTGTACCAGGACAGCCCACAGTCTGTCAGAGTCAGCCTCAGACTAACCCTGTCATCAGTCTACGTTGCTCAGGGAGCTGGGCCCAAGTGCACTGCAAACGTGCACGTATGGAGACCCTTGTCAGGACCCCGGAGGCAGGTGGCACGCTCCTAAGCACCCACCCAGCTCCTGCCACCCCTCTGTCCCCTCTGTCTCGATGAACTCAGGTTTCTCCCACATACCTTCAGGTGCCCAATACCCATGCCCTTTCTCTAG
Seq C2 exon
ACAATGCCCAGGACTACCAGTGGATCGGCCTGAACGACAAGACCATCGAAGGGGACTTCCGCTGGTCAGATGGACACTCCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016158:ENSBTAT00000021512:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.194 A=NA C2=0.036
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
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAGAAGCTGTGCGAGGAG
R:
AGGAGTGTCCATCTGACCAGC
Band lengths:
240-644
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]