BtaINT0012512 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016158 | ACAN
Description
aggrecan [Source:HGNC Symbol;Acc:HGNC:319]
Coordinates
chr21:20867022-20868151:+
Coord C1 exon
chr21:20867022-20867166
Coord A exon
chr21:20867167-20867968
Coord C2 exon
chr21:20867969-20868151
Length
802 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
GAAGGGTATTTGCCCCTCAGTGG
3' ss Score
3.04
Exon sequences
Seq C1 exon
CAATTTGAGAACTGGCGCCCCAACCAGCCTGACAACTTCTTTGCCACTGGGGAGGACTGTGTGGTGATGATCTGGCATGAGAAGGGCGAGTGGAACGATGTCCCATGTAATTACCAGCTACCCTTCACCTGTAAAAAGGGCACAG
Seq A exon
GTAAGTGGCAGCATGGGAGGGGTCCCACAAGGACAGACTCAAGACCCCAGATTCCTGCTGTGTAACCTGAGCCACGTCACCTGGACTCCTGGCTGCTGGCATCACTCACCTGCCCAACTAGCAGATTGGAGCTGACCTGAGGGGCAGGGGCCTCGCCCCATGCCAGCATCCCAGAGCCAAGGGAAAGGCTTAGCCCACTAGGGACCGGGAGAGGGTGAAGGCTAGAGGACAGAGCCCCCTGCACACACAGTGCCCTGGGTATCAGCACAGAAAGTCACCCACAGTTGCACATGAATTGGGAGCCTCCCTCTCTAGGATCCCAAGTCCATCAGTCGCACGAGTTGGAGAGTTGTCAGGCCTTGATCCTTGGCTTTGAGTCTGCAGACTTGGAGGTGTGGCTGGGACACTCGCCAGTGTTCCTGCTCCTGGCCTCATGCCCCTCCCCCCGCCCCCAGCCTCCTTTGGTTCCTCCTTCCCCTGCACCTGTTTTCATAGTCCGTTATCATGGCAAGGTCACAACCAGTCTACCTGGCTCTCACCCTCTTTCCCAACTCCTCATCCTTTTATTCCCTTCCTGCTGCTGTAAATCATTGAGGAGCCCAGATGTCAGAACCAGTGGCTTCCAGATTCTCAGTGCAGAGTGAAAGCAGGCAGGCAGGGCTCATGGCCAGGTGTCCAGGCTCCCTGCCCCTTCCTTGGACTCTAAGCTGGCTCCCCACAGCCAGGGGGACCACACCAGCTCATCACAGGGCATCAGGGGAGACCCTCCGAGAGCCCTTTCTGAAGGGTATTTGCCCCTCAG
Seq C2 exon
TGGCCTGCGGAGAGCCCCCCGTGGTGGAGCATGCCAGAATCTTCGGACAGAAGAAGGACCGATACGAGATCAATGCCCTGGTGCGGTACCAGTGCACCGAGGGCTTCATCCAGCGCCATGTGCCCACCATCCGGTGCCAGCCCAGCGGGCACTGGGAGGAGCCTCGGATCACCTGCACAGACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016158:ENSBTAT00000021512:16
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=91.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTTGAGAACTGGCGCCCC
R:
GTCTGTGCAGGTGATCCGAG
Band lengths:
326-1128
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]