BtaINT0013186 @ bosTau6
Intron Retention
Gene
ENSBTAG00000046098 | ACSM4
Description
acyl-CoA synthetase medium-chain family member 4 [Source:HGNC Symbol;Acc:HGNC:32016]
Coordinates
chr25:18554155-18555945:+
Coord C1 exon
chr25:18554155-18554234
Coord A exon
chr25:18554235-18555821
Coord C2 exon
chr25:18555822-18555945
Length
1587 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTT
5' ss Score
7.63
3' ss Seq
CAGTGAAACTCTCTCTCCAGATA
3' ss Score
6.56
Exon sequences
Seq C1 exon
ACGCTTACCACTTATCCCATCACGACCCTCTGCAGTGCTCCCACCGTGTACCGGATGCTTGTGCAAAAAGACCTTAAGAG
Seq A exon
GTATTTGGGCAGAAATCTCCATTTGAACCACAAACAAAAGTTATAATCCAGCAACACAGATCTCCCCTTTTCAGTACAAGATAGTTTCTCAGTCTCACCATTACTGACATTTTGAACCAAATAATTCTGTGTCATGGAGTGCTGTCCTTTGCTTTGTAGCATTCTACCTGGCCTCTACCTACTATTAACCTGTATCAGTAGGACTTCCCTCTCCATCAGTGGTGATGATCAAAAATGTCTCCAGACATTACCAAGAGTCTCCTAGAGGGCAACCTCCCACCCCTGGCCCCCAACATCCCCAGTTTAAGAATCATTGGAACAACAGAACACTTCCAGAGACAACAAGAGTTCTGTAATCCCAGTGCTTTTATCACCCCTGCTCTAAACACACACACACACACACACACACACACACACACATATCTATATTTATACTGCCCTGAAGTTAATAAAGTCTTATGACTTAAAGCTTATATTCAACTTAGCCAAATCACCTGAACATTAGGTGAAGTTGCAAAGTATATTTATTTAACTAACATGAATTTAATACATAAGGAGAGAGAGAAAGGAAGAAACAATTTAAGTCATTACAGTCACCTGCTTCTCCCCTAAACCTGGATCCTTCAAAGACAAAACAAACAGAAAAAAGTCTTCCCCCAAGGTGTGGATGTCTAGGAGGGAGATAGCTATGAGAAACAATAAAGGAGACATGAATCTTCCCTTTTCCTAATCAACTCCTTGTGGCCCTCAGAATGTGAACATCTTGCTCAAATTTTAAGATTAATTCAAGGACTTCTATTCTGAATAGGCCCAATTCATTTTCTACCAAACCCTCCCTCCCATTATGGACCTCACTATGTTAGAATTGAGCTGTTCCAAGCTTTCTCACCTGAACCTGGCTGGGCAATTGAGTAGTAAGCCACTGGTTAAAAGCTCATGCTACAAAGTCAAATAGGTGGACTCTGCTCCTAATAGTGGATCTCAATCACTCAAGAGGACCTTGCTAAGGCTCCCTTAACTCCATCCATAAGAGATATTTAAGAGCCACCTCACAGGTTGTGGTAAGAATTCAACAACAGCAGCATGTTTGGTGAATGAGATACTTGACAAGTGATAAGTGTAGAGTACAGATTATTCAACTCTGCTCTTTATCTTTCGGAGGGCTTGGGCAAGTTCTTTAACTTTTTTCAACCTCAATGTCTTCATCTGTAAAACAGAGTTTGTGAAGATTATGAGAGTGCTCCACAAGCCCTTGTAACATCATAAATGTTCTATTAATACTAGCTGCCATATTTCTTGGCTCTTAATAAGTTCTTAATATCATTATTAGCATTTTCTCCAACATTTTCCTCTCTTGAATGACCTGTTAAATGTAAACTCCACCAAGAAACTGTTTTAATCATAACATACCCCATGTGCCTAGAACAACATCTGACAAGAGTAGTTGCTCAACAAATATTCTCTGAATGAACTTTCCTAAGACTTGCCCTTCCTCACTCTTTGCTTGTTTCCAATGTCCTAGTTATCTGCCAATGAAAGCCACTCATATTTTGCTCCCCAAAGACCCCAGTGAAACTCTCTCTCCAG
Seq C2 exon
ATATAAATTCAAGAAGCTGAGGCATTGCTTGACAGGAGGGGAGCCACTCAATCCAGAGGTGCTGGAACAGTGGAAAGTGCAAACTGGATTGGAGCTGTATGAGGGCTACGGACAGACAGAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046098:ENSBTAT00000064764:6
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(6.3=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(9.9=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:
ACCACTTATCCCATCACGACC
R:
CACTTCTGTCTGTCCGTAGCC
Band lengths:
198-1785
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]