BtaINT0013182 @ bosTau6
Intron Retention
Gene
ENSBTAG00000046098 | ACSM4
Description
acyl-CoA synthetase medium-chain family member 4 [Source:HGNC Symbol;Acc:HGNC:32016]
Coordinates
chr25:18541886-18545430:+
Coord C1 exon
chr25:18541886-18542096
Coord A exon
chr25:18542097-18545222
Coord C2 exon
chr25:18545223-18545430
Length
3126 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
GAGGCCTGTCTCTTTCCCAGGGC
3' ss Score
7.78
Exon sequences
Seq C1 exon
ACAGGAGAGAGACCAGCCAACCCAGCCCTGTGGTGGGTGAATGGCAAAGGGGATGAGGTGAAATGGAGCTTTGGAGAACTGGGCTCCTTGTCCCGAAAGGCTGCCAATGTGCTCACCAAGCCCTGTGGTTTAGAGAGAGGAGACCGAGTGGCCGTGATTCTTCCCCGAATCCCAGAGTGGTGGCTTATAAACGTGGCTTGTATGAGAACAG
Seq A exon
GTCAGTGCCAATATTTAACATTTCTAAATCATGCAGAAACAGAAAAAGACTGAAAGTAGAGGTTTTTCTGAATTGTTAGTCCTGACTGAAGTTATGCTTACAAAGAACAGAAAAACTGGGTTGAAATTAGAAGCAGTCATGATGCAATAATAGAACACTACCTCAAGAGGTAAGTATTATTGATGCGATGCCCATTTTGTGAGAAAGGAAACTGATGTTCAGAAAGGTTAAATTTGCCCAGAGTCACACAGCTAGAAAGCTATGCAATTGGAGCTTAAACACAAAACTCTATAAAAGCAAATGTGGGTACCAATACCTCTTTGCAGTGCTGGTTATGATGTGTTCATCCAGATGCTCCAGAACTTCCTTCTCTGAATACATTTGGATTCTCCCTGACATAGCAGTACAAAAGGAAGAAAAAAGGACTATAACAAAATGACTTTTAAGACTAAGGTTGTAGATTCCAGCTGGAAAACCTTTGCCTCTTCCCAGAAAATTAATGTATTAAATGACACATTTTCTCCCACAGTAGTAATTTATAATGTACCCCAGTAAAATTTCTACAGAACTCTTTCCCTTTCTAGGACAGAGTTCAGCAGAAACCACGGCCAGTGAGTTGGCCATCTATTTTTGTAAATAAAGCTTTAAAGTTATAATGGAATACAGCCATGCTCACTCATTTACGTATTGTCTATAGCTCTTTTTGCACTACAACAGCAGAATTGCTGATTGAAATAGAGATGGTACGACTCACAAAGCCTAAAATGTTTACAATCTGGCCTTTTACTGAAAAAGTTTGCACACACAACATAAATGTTTATAAGTCAATCAAAAATAAACAAGAATACCGAAGGATATACTACTATACAGAACACAAAAACGCTTGTTGCAATATCATTAATAATAGGAAAAAATGGAAACAACTATATAGGAACTATTAAATAACTTAAAAACTAGCTGAGAATAAAGTTTAGTGAGGGTGTGGTTATTGCTAATTGAAATTATGATGCTTCAATTTGCTGGAATGTCATTAAAAGAATAATTACAAGGATTTCATAATAGTGTTGAAAAATGCTCTCATTGCCAATATTACATAAAATAGCAATATATAAAATTCTTTTTACATTCACTATAAAAAGGAATTTGCAAATGTGAAACCAATTGTGGGTTGGAAAGAGATTAAAGGTTTTATTTGTCATAAAAATATACTAATATTACTTAACATAATGTATGCCATTTGTGAAATGCTGAGATTAAAAACAAACCCACAAGCAGAATGGTCAAAAATATACAATTAATTAAATGTTAAACAAGCGCCTGAGGGATTATGTTTTCAAGTTCAGAATAATTAAATCTCAGTAAACAGAGATACTAGTACTATGCACCACATAGCTAAATACTTTGCTTTTGCTGTAAAGCATAAAAATCTGAAATCCACTAGAAGAGAACTTACTCCTGACCCCCAAGCTATCCATTGAATACATCCACATCACAAATCCCCCAAGAGTACTAATAACTTCTGAGCCACTAAGAACAAATGGTTTGCAAAATCTTATATTTTTATATTGAGTGAATGATGAGATATTTTCTTGATTAACTTATCACATCAAATATTTATTCATCTTCTCAAGAGGGGATGACATGTAAGAGCTTTTAAGATACATTCAGTAATTGAAGTTTCCTTCCTAGGAATTCAACTCCATATCTTCCTATTTAGCCTACTTCAGGGAACTCACCAAGAAATAAGGAGTCTGGTATATGACACAGGTCTTGGAGTCTGGGAAGTGTATCTTTGAATCTTGGTTCTGCCACTTACTTTACAGCCCCTGGGCTAGTTGTCGTCTGTCTGCTGGGATTAATTTTAAGTGAGATACCAGGCATATATTATATACTCAATAAATGGCGGTGGCTCTTTGTAATGCTTTACATACATTCCACTTTCTTGCCATTGATCTGCTTTAAAAAGTACAAACCACTTTCCCTCTGTTTTTCATCTAATTCTCCCGTATATGTTCTTCTCATAAGGAACTAGTACTTTAAAATCAGGCCCATCACAGGCCAATGTTTAGAATGATGTGAAACAGTGGAATAAATGAAGCATTGCCAAAGTAATGTAGGCATATGTCAATGAACACAGACCACTGAGAAAACCCAGGTTTGAAGGCTGACTCTGCCACTTGCTTGGCTCATATTCCATCAAATGGCAACAACTGCATTGATTTACATGGTTGCTTAGAACAGTGGCCTCCAAGTTTTTTTTGGCTATACAATCTATCAATAAAAATTCTTGGGAAACATATACTCCCATCTGGATATAGTTATTTAAGTTGTTCTACTTTGCTAATACAGTATGTATAAAAATATATACAAAAATGAGATAAAGTCATAAACAGAATTCCATATCTGCAATAAATTTTTTAAATTCTAGTTTCTTCTCTTATCCCTAGTGGCTTATCTTGCCAAACTCATTTGGAAACCATAGGTTCAGATGATTGGATGAGTTGATATTCATGAAAATGTAAACCTGTAAAGTGCTGTAAAATGTAAAGTACTGTTTAAGTGTTATATGACAATGACTAAAATGGTACATAATAATAGCCCACCATTATGATGGCTCATGGTAAAGAATCATCTGCCAATGCAGGAGATGTGGGTTCCATCCGTGGATCTGGAAGATCCCCTGGAGAAGGAAATAGCAACCCACTCCAGTATTCTTACCTGGGAAATCCTGCGGACAGAGGAGCCTGGCAGGCTGCAGTCCATGGGGTGGCAAAAAGAGGCAGACATGTCTTAACAACTAAACAACAACAGCATAATGCTTACTATGTGCCAGACTTATTATTAGTTTCCCCAATTTACAAAGAAGGAAAGGAGGACACAGAGAGATGAAGGAATAAGTTCAAGGTCACAAAGCAAGTATGTTGCAAGAATGGGATTAGATCCAGGGACTGTCGGACTCTGAAGCCAGTGCTCTAAGGATCTCTCAGAGATCAGGGTCCTGCGGGATGTTCCTGGAGACCAAGACAAGGGTAGCTGAAGGTTAGATTTTGCAGCTCTTTGCCATGCAGGCACAAAGCCCAAATTTCCACAGTCCGCAGTCTATTCAGAGGCCTGTCTCTTTCCCAG
Seq C2 exon
GGCTTGTCTTCATGCCAGGAACAACCCAGCTGACAGCAAAAGACATCCTCTATCGGCTGCATGCATCTAAGGCCAAGTGCATCGTGGCCAGTGAGGAGGTGATCCCAGCAGTGGAGTCCATTGTGTCCGAGTGTCCAGACTTGAAGACCAAACTCCTGGTGTCTCCACACAGCCAGGATGGGTGGCTCAGCTTCCCAGAGTTATTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046098:ENSBTAT00000064764:2
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=FE(16.9=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(16.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]