BtaINT0013153 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001417 | ACSM1
Description
acyl-CoA synthetase medium-chain family member 1 [Source:HGNC Symbol;Acc:HGNC:18049]
Coordinates
chr25:18406410-18407153:+
Coord C1 exon
chr25:18406410-18406490
Coord A exon
chr25:18406491-18407051
Coord C2 exon
chr25:18407052-18407153
Length
561 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGA
5' ss Score
5.11
3' ss Seq
TCACAGATCTCTTGCTCCAGATC
3' ss Score
6.54
Exon sequences
Seq C1 exon
GGAATAAGCTGTGGCACTCTCCGGGGGATGAAGATCAAGCCAGGTTCCATGGGGAAGGCCATCCCACCCTTTGACATTCAG
Seq A exon
GTTTGATGGGAAAGATATTGGCAGAGAGCAGTTAGTGTTTGGCTAAGATTAGACCATTGTGTGGCAGGAGATGACAGAACCAGCCATGCCTCCCAGTTGTCCTTTCTACTCTCTGCCTACATTTCCTCTAATTTCCTGGGGAAGTTTCTGTTGAGAAATGTCCTGGGCATGAGTGCAATGTTCTGGGCATGAGTGCAGCTTTCCGGGATGTCCAGAGGCCTCGCTCACCTAGCCTGGAGAAAGAGTACTCACTGTAGCGCTGGAGGCTCTCTCCACTGCTGGTGCTTTTAGTCTTTCCTGATCCATATTTTCTAGCTTGAAGACACATTTGGGATGTGTATATATCTATGAAACAAATAGATTCACCCATGACTTGGATTTCTCCATTTGCTGGCTTCAAAGACTTCTGACAGTTTTATTATTTTCTGAGAGGGCTCCTGTATCACAACCCCTTTCCGCAGTTACCCCTACTGTGTCACATGAATAGGCCAGGCAATATTTGAGTGGGGCAGGAATGTTGGGGATCCTTGCAGGGTGGGATTCACAGATCTCTTGCTCCAG
Seq C2 exon
ATCATTGATGACAAGGGCAATATCCAGCCTCCCAACACGGAAGGAAACATTGGCATCAGGATCAAGCCCACCAGGCCCATAGGCCTCTTCATGTACTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001417:ENSBTAT00000001859:9
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=0.353
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(6.3=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(8.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAATAAGCTGTGGCACTCTCC
R:
TCATAGTACATGAAGAGGCCTATGG
Band lengths:
182-743
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]