BtaINT0013143 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001417 | ACSM1
Description
acyl-CoA synthetase medium-chain family member 1 [Source:HGNC Symbol;Acc:HGNC:18049]
Coordinates
chr25:18409891-18411035:+
Coord C1 exon
chr25:18409891-18410018
Coord A exon
chr25:18410019-18410935
Coord C2 exon
chr25:18410936-18411035
Length
917 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGT
5' ss Score
8.53
3' ss Seq
AGGAACCATTGGTCCTGCAGATA
3' ss Score
6.13
Exon sequences
Seq C1 exon
AATAACCCAGAGAAAACAGCTGAAGTGGAATGTGGGGACTTTTATAACACTGGGGACAGAGCAACTATTGACGAAGAGGGCTACTTCTGGTTCCTTGGGAGGAGTGACGATGTCATCAATGCATCCGG
Seq A exon
GTAGGTGTAGCTGACCCTGAGCCAGAAGGTATCACTCTCATATGCCTCGTGGGATCTAGCTTGCCCAGATCCTTCGTGCACTGGTGGTGGACTCTCAGCCTAGTTCTGAACCATGGTAAGTCATCATGCAATTTAAAGGGACTGGGAAGGAAAACTTTACTTTGGTCCCTCTTTGCTGAGGGAGCTTATTCTGTGTGCTCCTCTGATGAAGCACACACCACAAAAAAACATAACAACAACAATAATAAAATTCACCTTTATGGAATATGTATTATGTGACAGCGCTCTGTGCAGTGTCTTATACAATCCACTTCTCAATGCTAGAAGGCAGCTGTGACTATGCCCATTCTATTTTTTTTTTTTTTTTTAATTTTAGGGGAGGAGGCCCACACTGTGCAGCATGAGGGATCTTATTTCCCTGAGTGGGAATTGAACCTGTGCCCTTGGCAGTGGAAGCACAGAGTCCTAACCACTGAACCACCAGGGAATTCCCTTGATTATGCTCATTTTACTTGAGGAAACTGAATCAGTGACCAGTGGAGAAAAACTTGCCTGAAGTTTCCAAGACAGTAGAGGGTACAGCCCAGATTTAAACTAAAATGGTCTGATTCCAATTCTGTTGTCCCTAAGTCTTAAATAATTTATAAAGGAAATAAAATGACACATTACATAGTTTAGGAACAGGATGTAAAATTTCAACAAATGTTGAAGATAAAGAGTTTTTATGCCAGAGGAAGCTGCTTGACTTCAGGAATCCACATTTCAGTCCTCTTACACAGCCTTTGCACAGGCCTCTGGCTCCCTGTGACAGTTCCCCTCTGTGCCAGGGGAAGATGTATCTCTCCAAAAGGTGAGACCTGAGGGCCTGGGTCACCCTAGCCCTAGAATTTGCTCAAAAGGAACCATTGGTCCTGCAG
Seq C2 exon
ATACCGCGTTGGGCCAGCAGAAGTAGAGAATGCCCTGGCAGAGCACCCAGCGGTGGCTGAGTCTGCTGTGGTGAGCAGCCCGGACCCGGTTCGAGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001417:ENSBTAT00000001859:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.116 A=NA C2=0.176
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
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCAGAGAAAACAGCTGAAGTG
R:
CTCGCCTCGAACCGGGTC
Band lengths:
224-1141
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]