BtaINT0012513 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016158 | ACAN
Description
aggrecan [Source:HGNC Symbol;Acc:HGNC:319]
Coordinates
chr21:20867969-20868837:+
Coord C1 exon
chr21:20867969-20868151
Coord A exon
chr21:20868152-20868657
Coord C2 exon
chr21:20868658-20868837
Length
506 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGC
5' ss Score
4.78
3' ss Seq
CCATTTCCCTTGCACCCCAGCCG
3' ss Score
5.46
Exon sequences
Seq C1 exon
TGGCCTGCGGAGAGCCCCCCGTGGTGGAGCATGCCAGAATCTTCGGACAGAAGAAGGACCGATACGAGATCAATGCCCTGGTGCGGTACCAGTGCACCGAGGGCTTCATCCAGCGCCATGTGCCCACCATCCGGTGCCAGCCCAGCGGGCACTGGGAGGAGCCTCGGATCACCTGCACAGACC
Seq A exon
GTGAGCATCACCCCGCACAGTGTTAGATCCAGCCAACACATCCTCCTCCCTATCCCCGACTGCCAACACAATCGAGGGCTCTGTCACAGATGTCCCCTGCCCCCCGGGAGGTTCACTTTCACTGAGAGGGGGACGGAGAAGGCGAGTGCCCTACTGTCCTTTTCAACGCCCACCCAAAGCCCCCTGTTACCAGTCCCCCCGTCGTGTCCGATTCTTTGCGACCCCATGGACTGTAGCCCGCCAGGCTCCTCTGTCCATAGGATTTTCCAGGCAAGAATACTGGAGTGGGTTGCCATTTCCTACTCCAGTATTCTAGCCTGAAGCCCCTTAGCCCAAGGTGGTTCCAAGAAAAATCAAAACCAAGAAGCAGGTAAAACCTCAGGCTGTCTTCATCAGCCCATGATTTCTACAGGGAGGGGATCAGCAGAGAAGGACTGAGGGAGGCTGGGCTGGCCCGCTTTCTTCCCAGAGTTCACCCAGATTTTTCCATTTCCCTTGCACCCCAG
Seq C2 exon
CCGCTACCTACAAGCGCAGACTACAGAAGCGGAGCTCACGGCCCCTGAGGAGGAGCCACCCCAGCACGGCCCACTGAGAGGAGCTTCCCGGACGTGCCCAGGACGCTGAGCCCAGAAGCCTAGCCAGGCTGACACCCCATCCGGATGGTGTCCTCTCCTTGTCGCTTTCTGTCATATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016158:ENSBTAT00000021512:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.680
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
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCCGTGGTGGAGCATG
R:
TGACAGAAAGCGACAAGGAGA
Band lengths:
342-848
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]