BtaINT0012515 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016158 | ACAN
Description
aggrecan [Source:HGNC Symbol;Acc:HGNC:319]
Coordinates
chr21:20831451-20833325:+
Coord C1 exon
chr21:20831451-20831834
Coord A exon
chr21:20831835-20833150
Coord C2 exon
chr21:20833151-20833325
Length
1316 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CGCTCTCCTGTGTCTTGCAGGCA
3' ss Score
11.3
Exon sequences
Seq C1 exon
AACCTGACAACTCGCTGAGTGTCAGCATCCCTGAACCGTCCCCGCTGCGGGTCCTCCTGGGGAGCTCCCTCACCATCCCCTGCTACTTCATCGACCCCATGCACCCCGTGACCACCGCCCCCTCCACCGCCCCCCTTGCCCCAAGAATCAAGTGGAGCCGCATTTCCAAGGAGAAGGAGGTGGTGCTGCTGGTGGCCACTGAAGGGCGGGTGCGGGTCAACAGCGCCTACCAAGACAAGGTCACGCTGCCCAACTACCCCGCCATCCCCAGCGACGCCACCCTGGAAATCCAGAACATGCGCTCCAATGACTCCGGGATCTATCGCTGCGAGGTGATGCACGGCATCGAGGACAGCCAGGCCACCCTAGAGGTCGTGGTAAAAG
Seq A exon
GTGAGAGCCTGACCGGGGGGACCCTGCTTCACCTACAGAAAGAACCAGAATGCCATCCTCACTGGTGGGCACCCAGGCTGGCTGGCTTGCAAACCCCAGCTCCTCCTCCTGCCAGTTTGCACCTCAGTTGAGTTACTTAACTTCAGTTGCTTCCTCTGTAACACGAAGCTAGTAACATCACTCTCACCAGACTCTGAGTGAATTAAATACTCCGTGGCCACAGTCACGTGTAATGAATGACAATCTGTGCTTCCCAACAATCCTGTGATTCGATTGCTTTGTGATCATCCCCATTTTACAGACAAGCAAACTGAGGTTAAGTGACTTGCCTGAAGTTTCCCAGGAAGGGAGCCAGAGCATCTCCTGACTCTCCACCCAGATGTCTTTTCCTTCCTCCACCTCCAGTTCCAGAAGCCAAAGAAAGGGATGAGGACTTTCTGGTCCCCTGCCCTCAATGGACTAAGGAATATGCTTGTGTTCTTGGTAGGCTTCAGGACTTCAGTCAGCACCATGTTTTTCCTGTTGGGTTGTTGTTCATTTGCTCAGTTCTGTCCAACTCTTCCCAACCCCATGGACTGCAGCATGCCAGGCTTAGAGAAGCCTTCACTATCTCCTGGAGTTTGCTCAAACTCGTGTCCATTGAGTTGATGATGCCATCCAGCCATCTCATCCTCTGTTTCCCCCTTCTCCTCCTGTCTTCAATCTTTCCCAGCATCAGTGTCTTTTCCAGTGAGTTGACTTTTCACATCAGGTGGCCAGAGTATTAAAGCTTCAGCTCCAGCATCAGTCCTTCCAATGAATATTCAGGGTTGATTTCCTTTAGGATTGACTGGTTTAATCTCCTTTCTGTCCAAGGGATTCTCAAGAGTCTTCTCCACCCCTACAATTCGAAAGCATTGATTCTTTGGTGCTCAGCACTCTCTGAAAGGCAGTCTGCTCCTACCTATGCCTTAAACAAGACTCTCACTGGGATGGCCCTGGGTGGAGGGGGCATCTTTCTGCAAAGCAAATATGGGGTCCTGGAATGACATGAAAAATTATGAGGAAGGCAGATTTTGATCCAAATCAAATAACCTGATTATCAGAATTATCACAGGTTTCCAAAAAGATGCCTTATAAGGTAATGAGCTCCCTGTTAATAGAAATGTTCTAGCAAAGGCAGAAGCACCCCATGCAGACATGGAGCTGGGATTCACCCATCAGCTGGAGGCCCAGCCCAGATGTCTCTATGCCCCCTTGACTCTCCCTGATTCTATAAGGGCCTGGATGAGAGGAGGCTGCACTGACCTGCCCTCTCGCTCTCCTGTGTCTTGCAG
Seq C2 exon
GCATCGTGTTCCATTACAGAGCCATCTCCACGCGCTACACCCTGGACTTTGACAGGGCGCAGCGGGCCTGCCTGCAGAACAGCGCCATCATCGCCACGCCCGAGCAGCTGCAGGCTGCCTATGAGGACGGCTTCCACCAGTGCGACGCCGGCTGGCTGGCCGATCAGACTGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016158:ENSBTAT00000021512:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.008 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0768612=V-set=WD(100=96.1),PF0019312=Xlink=PU(0.1=0.0)
A:
NA
C2:
PF0019312=Xlink=PU(60.4=98.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTACTTCATCGACCCCATGC
R:
GTCAAAGTCCAGGGTGTAGCG
Band lengths:
356-1672
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]