BtaINT0013175 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006447 | ACSM3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:HGNC Symbol;Acc:HGNC:10522]
Coordinates
chr25:18641429-18642991:+
Coord C1 exon
chr25:18641429-18641552
Coord A exon
chr25:18641553-18642910
Coord C2 exon
chr25:18642911-18642991
Length
1358 bp
Sequences
Splice sites
5' ss Seq
ACGGTATAC
5' ss Score
4.72
3' ss Seq
TCTTTTTTATTCTTAACTAGGTA
3' ss Score
9.93
Exon sequences
Seq C1 exon
CTATAAGTTCAAGAGCTTGAAGCACTGTGTAAGTGCTGGGGAACCAATCAACCCTGAAGTGACTGAACAATGGAGAAACAGGACAGGTCTGGATATCTACGAAGGATATGGACAGACTGAAACG
Seq A exon
GTATACAGACTTCACTGAAAAGACACGGCTGAACTCAGTTCAGCCAGATAAATAAAAACCAAAGTGCTACCATGTGTAAAATAGCTAGTGGGAAGCTGCTGCTATGTAACACGGGGAGTTCAGCCTGGTGCTCTGGGATGACCTAGAGGGGTGGAATGGGGGTGTGTGTTGAGAGAGGTTCAAGAGGGAGGGGATATATATATATATATATATAAAATTATGACTGATTTGCATTGTTGTATGGAAGAAACCAACACAACACTATAAGGAAATTATCCTTCAATTAAAAAAAAAAAAACAAATTGTTTATTGTAGCTTTGTGATTGAGGGATAGGGAGGGAATGGAGTGATTAGAAGAAACAGTTTCTTTAAAAAAAAAATGAGGGAAGATGGTTACAAAAGAGCTCTGTAAGAGATGCAATTGTTTACATAGTCATTCACTGAGGAAAGCCACTATAAAATTGACTAGGACCAGGGCATTAAAAAATTTATGTATAATATCATATATGAAACGAATAGCCAGTCCAGGTTCGATGCATGATACTGAATGCTTGGGGCTGGTGCACTGGGACGACCCAGAGGGAGGGTATGGGGAGGGAGGAGGGAGGAGGGTTCAGGATGGGGAACACGTGTACACCTGTGGCGGATTCACGTTGATGTATGGCAAAACCAATACAATATTGTAAAGTAATTAACCTCCAGTTAAAATAAATAAATTTATTAAAAAAATACTAGATGTATAAAAAGATTTCTCTTTGTATAATAAGGAAATATCTTAGGGCTTTGCTGAAAAAATAGAAAATGCTGAGCTCCTTGTTACTTGAAATATTAAGTTTGCTGGACAACTCCTTCACAGAACACTCTAAAAAGGTTTATCTAAAGAATTCATGGAAATACGAAATTCTAGAGGAAATGAAATAACAAAAATTGTTATGTAGGAAAGAGAGGAATAAGATAGGGCAGATAAGTGAAAGACTGAAATAAATTTTTCATTGTCTTTATATACTGCTTCAATTTATGAACCATGAGAAAGTAGTACCTGGTCAAAAATTAAAATACAAAAAATAAAATAAAAACAAAAATCGATGAATTTATTAAATAGAAATAGCATAACAAGTACCATGTGAATATGAGTATAAATGTTTTCATAAATATGGATGTTTTAGTAGTTACAAATTTACTTAATATTTTAACTATATTAGTGTCTGTCTATAATTCTTGAGAGCAGGAAATGTTTTAATGTGAGCCTGGTTCATAGTAAGCTCTAAATAAATATTTATTGAATGAATGCATGGTGGATAAATGAATAGATATAAGTTATTTGTAATGCTACTTTACTCTTTTTTATTCTTAACTAG
Seq C2 exon
GTACTAATCTGTGGAAATTTTAAGGGAATGAAAATTAAGCCTGGCTCAATGGGAAAACCTTCTCCTGCTTTTGATGTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006447:ENSBTAT00000008455:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(9.9=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(6.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAGAGCTTGAAGCACTGTGT
R:
TCAAAAGCAGGAGAAGGTTTTCCC
Band lengths:
190-1548
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]