GgaINT1005339 @ galGal4
Intron Retention
Gene
ENSGALG00000002200 | ACSM3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:HGNC Symbol;Acc:HGNC:10522]
Coordinates
chr14:14913151-14914952:+
Coord C1 exon
chr14:14913151-14913381
Coord A exon
chr14:14913382-14914741
Coord C2 exon
chr14:14914742-14914952
Length
1360 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
TGTACCCTGTTGTTCTATAGGAG
3' ss Score
9.44
Exon sequences
Seq C1 exon
CATTTCTTGGAGGCTGCTTGAGTTGCTGCTGCCATGCGGTGTCTACTGAAGGCCCTGAGCGTTGTGTCCCTGCATGCTTCCCTGAGAAGATCTCGCCAGCTTTGCAGCCAGAGCTCCTCAGCTCAAACCTCATTTAGTTACGAACTCATAAAACAGCAGTACAGACCAGAGGTGCCAGAGTACTTCAACTTTGCGAGCGATGTGCTAGACAGATGGGCCAAAGTAGAAAAG
Seq A exon
GTAACACCTACTTGTCTGCTCTGCTGCTGAAGAGCTGAGAGCTGCCAGGCACATCCATCCAGCATGCCGCTGTGGTTGTGCTCTGGTTATAATCTCCTGACCATCTCATGTAGTTTGAACCCTTAGGCCACATGCTGCCCTGTTTGTGGGCCCAAGTGGCTTGTTCCTTTAATCAGTAACTCTGGTGACACTGACCCTGAGTAAATTTGTGCCTTAAGGATGAGACCAACTGGAGCACTCTGAGCCTTGCACCACTTCCCCTACCAGCTGTGACACGCACCCCGCCTGTGTGTGCAAGGCAAAGCACTCAGCCCGCACACATCTCACTGCTTGCCAGCAAAATGAGTAACGCGGTGTATTGCCAAACCTCCCCATTCTTTTCTAGTCATGAAATCTTTGCATCAGGAGCTATCAGTCCACAAAACTGAAACACTTGGAGTGCCCAAACAGGCACGAGCTCTAAGCAAGGATGGGGAATATTAAAAAAAAAACCAAAAAAAGAGTGGTAGGTATATCACCTATCTTTCTAGTCTCTGTGGGTGTAGTCCACAGGTTCTTCATGATAGGGGCTGAATACAGTAGTGTCCACCTGGCAGCGGGAACAGAGCAGAGGTATCTCCTGTCTGACACAAGGCAAGCATTTGCTCCATTTGCAGGCAGAATGTATCATGGCAGGCTGCGAACGAAGCAAGGAATGAACACCTGAAGAGTTTTGCCCTCTGAAGTACACACCTAAACTCTTCTCCCTGGAGATGAACCTTAGTGTTATTCTGCCTTCAAACAGATGGCAAGATACCATACTCTTGCTGCCTCCGTAAGGTTTTCTTTGCTCAGGAAGTGACTTGCACTATGCCACTGCTAAAGGCATCAGTCCCCTTAAGAGCACATGGTGTACATACATTTCACTTTTAACATATCTGTTAGTTATAAGGGATGTTGATTAGAGGTCACACTGTGCTTTTGAACCTTAGGATCTAATTTCAGAAGTAACAAATAGGCCCAATTCAAGAATAAGTTGGAAATGAGCTTGGAGTGTTTGTGAAACTGAGGCACAGCTCAGCTGCACCTGTGTCCATTGGCGGCTTTGTTGGTGGCTAGGAACAGAAGGCTGGACAGCCTCTGCAGAGGGAAACACCATGAACTCAGGAAAGGAATGCAAATGTAATTTCTGACATGATATTTGTAGGCTGCTCTTCCTGAAGGAGAGCCTTGTTCGGAGCCAGTGGCAAATTTCAGCTTCATCCTCAGATTCCTCCAGCACTGAATTAGTGCCAAACGCTTTGTTTCCTCAGACTTAAATAAGGTAAAGGTGGTATGTTCCTAAAGTGAAACATTTGCACTGTACCCTGTTGTTCTATAG
Seq C2 exon
GAGGGAAAAAAGACTAAAAACCCCGCACTGTGGTGGGTAGATGGTGATGGAGAAGAGGTGAAGTGGAGCTTTGAAGAGCTGGGAGTGCTGTCCAGGAAAGCAGCCAATGTACTCTCTGGTGCCTGCAGTCTGCAGTGCGGGGACAGAGTTCTTCTGCTTCTGCCACGGATCCCAGAGTGGTGGCTGCTGAATGTGGCTTGCATGAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002200:ENSGALT00000003444:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PU(1.2=7.6)
A:
NA
C2:
PF0050123=AMP-binding=FE(16.8=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:
AGAAGATCTCGCCAGCTTTGC
R:
TCATGCAAGCCACATTCAGCA
Band lengths:
352-1712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]