BtaINT0013200 @ bosTau6
Intron Retention
Gene
ENSBTAG00000037449 | ACSM5
Description
acyl-CoA synthetase medium-chain family member 5 [Source:HGNC Symbol;Acc:HGNC:26060]
Coordinates
chr25:18224585-18226148:+
Coord C1 exon
chr25:18224585-18224664
Coord A exon
chr25:18224665-18226018
Coord C2 exon
chr25:18226019-18226148
Length
1354 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
GTGGCCTTGTTTTTTGGTTGAGA
3' ss Score
-3.86
Exon sequences
Seq C1 exon
ACTCTGTCCAGGTTCCCGATCACCACCCTCTGTTGTGTCCCCACCATGTTCCGTCTGCTTGTGCAGGAGGACCTAACCAG
Seq A exon
GTATGGCCCATCTTTTTGGTGCTTTAGTGCTTTTAGATACCCAAGTATCTAAATATATAGCACAGGTACCCCTTATAACACATGTCCCCTCTTATTCCAATTTTCTTTCTCTCAGTGTCTCTCTTTCTCTCTCTCTCACACACATGTACACACATACTCACAAGCATATATACCCATATCCTTTGTAGACACCTCTTAGGAATGAACTTCTGGCCCCCAAGAATTTGCAACCAAATGGAACTGAACCGAGTAGAACTAAACAGTCTGAAATTTTGGTGCTTACACCCATATACCCGTAGGCCATTCCCTCAGCAACGAGATTAGAAAAAATGACGGATAATTGTTAATCACCTGTGGAATAGGTTTGTGGCCAGAGCCTTAGGTCTGGTGGGACTAACAAGTCCACCACAATAGAAGCTCCATCCATCCCATACCAACTCCAGCCAGCCATTCTCAAGTGAATGCCACCCAACAGAGGGTGACAAGACCTTGCAGATGGGTCCCATCTCGGGTGAATCCAAGGCAACATCTTCTGATGGGGCAAGTTTCACTGCTGGGTCAGGAAGAGAGAGGCCCATCCCCATTGGTAACCTACTGACCCTCATCTCTGTCTCCCTTTGCCTATTCTCTCCCAAGTAATGGGAGTTGCCCCAACCCCCTTATCTTCCCTAATCCCATATATCTGGTCATAAAGTGCCTAAGAGAGTGAGTTCTTCCATGATTCTCAAGGTTAATTCTTCTATGATGTAAGAATTCTTCCTATCTGTCAATATATTGTGAATATTTACACAGCATGATTTGATCAAAAGCAGGCTTAGAATGATTTGTTTAAGCAGAAAGTGATTGAAAGATATTAGGTAATAGCCAAACCAATTTAATCCAAAGGGGAAAATGATCATAAATTTATTTACAGTCTCTGATCTTTCACATGTTGAATAATTTGTTGAATACTTTTGCAAAAGACTTAATATCTGTCAGAATTTGGGGGTTTCTAAAGGGCTACTTTCTATCTTCTTAGTTGTTAATTGATTTCTCTTTTTCACAGGTGGTTGTCCTAACCAACTTATTATCAATCAGTTTGTTTGCAACTAAATCATTTTGACCAGTTCATGTGGAATTCACCATTGTTATGCCAAAACCTACTGTGTGAGGTTCTGATTTTATTTTAAACTCAGATAAGATTAAAAAAAAATTTTTCTGTCCATGCGTGCAAGGTCAGGGCACTTGGGGCAGATTTATAAATCTTTATAAGTATGGGCGCCTATGCTTTAGTGCCTCAAGGTGTCTTCCAGCAGTGCTAGAGTATGGGGTTGGGCATGGGGATTCTGACACATGTGGCCTTGTTTTTTGGTTG
Seq C2 exon
AGAAAGGTACCAGTTTCAGAGCTTGAGACACTGTGTGACCGGAGGGGAGGCCCTGACTCCTGATGTGAGGGAAAAGTGGAAGAGCCAGACGGGCCTGGAGCTGCACGAAGGCTATGGCCAGTCTGAAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000037449:ENSBTAT00000054846:7
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(10.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTGTCCAGGTTCCCGATCA
R:
GGTTTCAGACTGGCCATAGC
Band lengths:
209-1563
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]