BtaINT0013179 @ bosTau6
Intron Retention
Gene
ENSBTAG00000046098 | ACSM4
Description
acyl-CoA synthetase medium-chain family member 4 [Source:HGNC Symbol;Acc:HGNC:32016]
Coordinates
chr25:18557620-18557939:+
Coord C1 exon
chr25:18557620-18557747
Coord A exon
chr25:18557748-18557839
Coord C2 exon
chr25:18557840-18557939
Length
92 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGT
5' ss Score
7.43
3' ss Seq
TTCTTCTTTTCCCCTTCTAGGTA
3' ss Score
13.64
Exon sequences
Seq C1 exon
GACAATCCAGAGAAAACTGCTGCCACCATAAGAGGGAATTTTTACGTCACTGGAGACAGAGGAGTGATGGACAGTGATGGTTATTTCTGGTTTGTTGGCAGAGCTGATGATGTCATCATATCCTCTGG
Seq A exon
GTATGTACATTTGGTACTTTTAGAAAGTCACAATTTACCAGGGAAATCTACTTAGGTGTAGATATCAAAGGCTTCTTCTTTTCCCCTTCTAG
Seq C2 exon
GTACCGTATTGGGCCATTTGAAGTGGAGAGTGCACTAATTGAGCACCCAGCAGTCGTTGAATCAGCTGTTGTCAGCAGTCCAGATCCAGTCAGAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046098:ENSBTAT00000064764:10
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=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PD(9.9=95.3)
A:
NA
C2:
PF131931=AMP-binding_C=PU(32.1=76.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAGAAAACTGCTGCCACCA
R:
GCTGGGTGCTCAATTAGTGCA
Band lengths:
172-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]