BtaINT0013166 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006447 | ACSM3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:HGNC Symbol;Acc:HGNC:10522]
Coordinates
chr25:18605635-18606855:+
Coord C1 exon
chr25:18605635-18605853
Coord A exon
chr25:18605854-18606644
Coord C2 exon
chr25:18606645-18606855
Length
791 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
ACTTGTTTGTCTTTCCTCAGGCT
3' ss Score
10.15
Exon sequences
Seq C1 exon
ACGTTAGCCCTTGTCACCATGAAGATATTACTTTGTGCCAAATATTTTCAGTGCCCAGTAATTCCTGGCTCTATGAGAGCATTGCATAAAGATTACAGAACAGTGACCCCTCAGAATTTCTCCAACTATGAATCCATGAAACAGGACTTTAAACTAGAGATCCCAGAGTATTTCAACTTTGCCAAAGATGTCCTGGACCAATGGACCAGTATGGAAAAG
Seq A exon
GTATGTAGCAAGGACCAGTCAGACTGCAGTTTCTTAACTGAGAGTGATTTTTGCCCCCAGGGCACATTTGGCAATGTCTGGAGACACTTTTGTTGCTGTGAGTTGGGGGAGGGTGTATGCTAATGGGTGGAGGCTAAGGGGTGCTGCTAAATACCCTGTAATGCACAGGACATCTGGTTCACCGTTAAGAGTTCCATGGTTGAAAAAGCCTGGGTTATAAAAACCTATGATTATAGGTTAATTTTTTAAAAAAGAAAAAGGAGTAGGGGCTTCCCTGTTGGTCCAGTGGTTGGGAATCCACCTTCCAAAGCAGGGAACATGGATCTCACATGTCACGGGGCAACTCAGCCTGCTGGCCACAGGCCACAACAAAAGATCCCACCTGCTGCAGTGAAGATCCTGTGTGCCACAACAAAGACCTAAAGTGGCCCAATAAATAAATAAATACTAAAAATAAATAAATATAAAGGACTAGAGTGAAATGGGAACCCAAGAATAAAAAATGGCAGGAAATGAGGCAAAGAGCATTGAGAGAATATAAAGGGATGCAAGAATTCTACCTTTATGGAAAGAAAAATAATCAGGCTAAATGAGAAATCACATGTGCTGAAAGAAGTGACATGGCTCCCAAAATCTAGAAATAAGGACCCCAGAGTTCCTCCCAAATACTCCAAGTATGTCCTAACTAAAGACCTGTGAATTTTCTTCAGAGAAAATATTACATTAAGTCAGTTGAAATAGAATTTAGCTGCACAACCACCTTTAAATCTGACTTGTTTGTCTTTCCTCAG
Seq C2 exon
GCTGGGAAGAAACCTTCCAATCCAGCCTTCTGGTGGACAAATGGAAATGGAGAAGAAGTGAGATGGAGTTTTGAGGAACTAGGATCTTTATCAAGGAAATTTGCAAATATACTTACAGAAGCCTGTGGCCTGCAAAGGGGAGATCGAGTAATTTTGCTTTTGCCCAGGATCCCTGAATGGTGGCTTGCAAATATAGCCTGTCTGCGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006447:ENSBTAT00000008455:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PU(0.5=2.7)
A:
NA
C2:
PF0050123=AMP-binding=FE(16.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCCAAATATTTTCAGTGCCCA
R:
GGGATCCTGGGCAAAAGCAAA
Band lengths:
358-1149
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]