DreINT0025571 @ danRer10
Intron Retention
Gene
ENSDARG00000004880 | acsm3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:ZFIN;Acc:ZDB-GENE-080220-22]
Coordinates
chr2:44882657-44886216:-
Coord C1 exon
chr2:44886073-44886216
Coord A exon
chr2:44882814-44886072
Coord C2 exon
chr2:44882657-44882813
Length
3259 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
GATCTGTGTGAATTGTTCAGGTA
3' ss Score
6.42
Exon sequences
Seq C1 exon
AAGAGTATCAGATGACCATGTTTGTGTGGACACCAGCAGTGAGGAGCCCATGACCATCTTCTTCACCAGTGGCACAACGGGCTCCCCAAAAATGACCCAACACAGCCACTGTAGTTACGGTTTGGGGCTCACCGTGAACGGCAG
Seq A exon
GTTTGTGCCATCATAGACAAGTATCATTTTTATGGTTGTAAATATATACAGCTGAAGATGCCTTCAAGTTTGATAAACATAATAATGTATTCTACAGTTCAAAGACTGGGGTCAGATATTTCAATAAATGTATTATTTATTCAGTAACGGGCACATTAAACTGATCCAATGTGAAAAATGCATTTATAATGTGACAAAATAAAGTTTTAATATGATTTCTATGTTGGCAAAGCGAGCTTAACGTGCTGCAATTGAAGAAAACACATTAATAAAATTAGCAAAAGATCCTCAATGGTCTGACAGCATATGCGTTGCAAATCCTTAACGCAAACACATAACAGTGCTTTATTTTCTCACAACACATGCAAATAGCAGAGAACACAACGGAAATGTTTCAAGGGGACCCTAAAATGTGAAGGACCCAGCTATTTAGATTATGCTTATTTAGGCTAATAAATAAATACAAAAGGCAAGGAAATTGTGTAATCAGGATGTTAAAATAAACCAAAAAAAAAAAAGACTCGCCTTTCAAAGATCACCTACAACCTACAACTTCACTGAGCAATAGTCACGGCACAAACAAATCTCTGCCAGATCTGTCACATTTTTGGGTCCCCTTGAATCATTTACGTAATGTTCAATGCTATTTATCATTATATCATTTATCATTAATCATAATATTTGAATGATTTCAGAAGGATTATGTGACAGACAATAGACTGCAAAAAATGCTTTTCTTTTCTTTTTCTTTTTTTGTCTTGTTTCTAGCCCAACATCTAAAAAATCTCATATCAAGAAGCATTTTTAGAAATAATGCAATATTAAGTTAGTTTTTCCTTAAAACATTAATTTGCTTGCATATTGGCAGATAATTTAGCTTGTTTTAAAGGGGTGGTCCACTTCGAAATTATAATTTAAACTTTAGTTGATGTGTAATGTAGCTTCTCTGAATGTAAAACGCTCAAAGTTCAATGCAAAGGGAGAGCTTGGTTTATACAGAGTTCGCTTAGCAAAGCCCACAATGAACAAATTTTAGCGACTACAAAAAAATACTTCCGGGCCTGTGAGATCACAAACGGACTTTTACCGCTGCCCTCAGCTGCGCTTACCACTGCGCAGCTAAGGGTGGTGGCCAGAGGCGCTGTAATGTTACAGCAGAGGGAGCTAAAATGCCGTCCAAACGCTGCTATTTCCACAGAGCTTCTTCTGTTTCTGTATTTGGGCTTCCAAAAAACATAACACAAAGACAGAAGTGCTTACAGTTCAATATTAATTATGTTCCTGAGAATTATGAAATGCATAGCAATCATGATTTGACAAAACAGCTCCAGAATCTCTCCCAGTTCAGTGCTGGATTTGGTTATAATCTCCTCAAAGATGGAGCAGCTCCAACAAGCAGAAGCTGTGAACTCTGAGCCACAACCTGTTGAAAAGGAGGTTAGGAGGTAACTTGTTTAGGTAGCTAGCTTGAAGCCAGTGGTGCTGTCGGTAAGAACAGAGGTCCAGTCTAGGCACTCCATTTAGTTGTGTTTATTAACAATGACAAGGATTTGTACTTAGGATGAAAGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGCAAGGAAACAACAGAAATACAATGTGTCAGTAATCAGTAAGGAAATAACAAATACAAATGCTTCAGTTTACCAACAAACAAAGTACATAACTAAACAAATATATGGCAAATATGAAACATGAGCACTTAAGTCAACTTAAATCATACAAAAGCCACTTACATGGTCAAATACGCACACACAGGAAAACAAGGGAGATCAAATTCAGTCCTCTGCAGTTCAGCCATGTGCTGCCAGAAAGTAACAAACTGTGGGCACAGGTGCAGTTAATAAAGGCCTTGAGGCAGTCCTGATTGGCCAGAGGTTGAATGAGGAGATTGGAGTGTACCATCGGAGCAGGGGTGTGACACTGAGTTTGCTGTTTAAGAACAAAACTTCAACACCTGTAAGTGTTTTTATTTGTTAAAATTGATTATGACAGTGTCTAGCCTTAACGGTGTGTTGTAGCAAAGATGTAAACAATGGAAAATGCTGTTGGCACCGCTAACGATTTAGCTACAAATTCATATTTATCAGTCAAACTGCTGTAAACACACACACACACTTTACCAGCGCGTGCATGTTTCTTTATACGCAGCTTTTCTGTACATTCTACATCTCAGATAATGAACTCGCAAACGATATGTGAATGACTCGTGCTACTTACACATGCATATTCCATGTGAAAGACGTCGTGTAACACGTTGAGCTAAAAAAAAACATACAGGAGAGCTTGCTAACTCGTGTAGCAGCAGAAAAATAAATCAAGGCTCACACAGGTCGCATCCCACATCTTAAACTCTATTCTTCTGTCAACAGTGTCACGATATATTACAGAAAATAACAATCAGAGCATCAAAGAAAAAGAAAAATAAACATTAGTCCCGCGCACATGCACTTCTCATGTTATACCCGTCTAAAGACAGTTCACACACACACATATATAGACACAAACATATACACAATGGCGACCTCTCTTAAAGGAGCTGCACCCCATTTTCACACGCTACAGACACTTTTTAGATTTTATTTTAGAGAGCGGGCATGAGGTTGACTTACTGTTTACACAAAAAGCGCATGCTTGTACAGGCGTGACATGGAGCCGATCCACGAATCGCTGCACATTATGACACATGACCAATCAGAGTCACTTTAGGCAAGCCTTTCAGAGGAACTAGGAAATATGTCAGATGTTTACATGTTAGCTGAGTAGCTGCATATAATCAAAGTGAGATTTATGAAAAAATTATGTGATTTCCTTCAAGTGAAACATGAGCACATATTGCTTTGCATCTTATTAAAACAACCAAGCCTTAAAATGACATTCTGGACCACCCCTTTAATGAAAAACTCACTTAATATTGACATATTATTTCTGAAAACAAGATGATATGTTTTGCTTGTCTAGAAAATAGTTCTTGAAATGAGAATTTTCACATTTGGACTGCATTTTTTGCTGTGTAAAAATTAAACTTTGTTTAAAATGTCATTTGTTCCAGCGATGGCAATATTGTATTTTAAATTTTTTTAAAACGCAGCTCTGAAAAGCACAAACAATTTCTTCCAAAGACATTATCCTACCAAATCTTCAGAGCCCAAACTTATAATGGTACCATGTAATGTATGCATTTGATCTGTGTGAATTGTTCAG
Seq C2 exon
GTACTGGCTGGATCTGACTGAGCAGGATGTATTCTGGAACACCTCTGACACGGGCTGGGCGAAATCAGCGTGGAGCAGTGTGTTTGCTCCGTGGATTCAGGGAGCTTGTGTGTTTGTTCACCACATGCCACGCTTTGACACAAACACAGTTCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004880:ENSDART00000041806:4
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(11.6=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(12.5=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:
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]