DreINT0025567 @ danRer10
Intron Retention
Gene
ENSDARG00000004880 | acsm3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:ZFIN;Acc:ZDB-GENE-080220-22]
Coordinates
chr2:44875163-44876472:-
Coord C1 exon
chr2:44876373-44876472
Coord A exon
chr2:44875283-44876372
Coord C2 exon
chr2:44875163-44875282
Length
1090 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACG
5' ss Score
9.65
3' ss Seq
GAGTTTGCTTGATGTTTTAGGTG
3' ss Score
8.61
Exon sequences
Seq C1 exon
GTACCGTATTGGTCCATTTGAGGTGGAAAATGCCCTGATAGAGCATCCAGCTGTAGCTGAATCAGCCGTAGTCAGCAGCCCTGATCCTGTTCGAGGAGAG
Seq A exon
GTAACGTTGTGCATTCTGGGATTGCCTTCTTTATGAAGGATACAAGTATGACCTTAAAACTGGGTGAAAAATAAGTACTTGGAAGCCAGCAGCACCATTATTGTCAGAGCACCCTGTTTATACACCTCCTACAAAGATGCATTTCCTTTAATCCTATCATAAGTGGACAAAAAATAGAAGCATAATAGAAGGGTTTAAAACATTTTGACCTCATGCACTTTCAGAGTTAGTCAAAAAGAGGCGGTTAATAACAAGTGAGAACAGGGTCTAAGTAGGCAGATTCTGTATTTACTAGGAGTGACACTACACTGGAGTCACGGTTAAGTACGTATCTCTGTGATGGGTAGGGCCAGACGGAATCCGCAGACTTTTTTTTTTTCCATTTCTGGAGAGAATTTTGGTAAAACTCTTACCAAAATTATTGTAGGAGTATCATAACTAAAACCTTAATATGTAAAATAATAAAATAAAACTTTTTATTTTATTTATTTTTTTACTTTTTTAATGTTTAAAATGCAAATCCAATTAGATTCACTTTATTTGGTAAATAAAGCAAGTCTTCTATATAATAAATCTTCTAAAAGACTTACTTTACAAAATGCATTGTACAGAAATCAGATGAACATTTTCATATTGGTCAATAATATTACTGCAATTGGTACAGGTACAAAAGGAATAAGCAACACATCTCCAGTACTTGCTTTCTCAGTTTATTTTGAACAAGCAGTGTTAAGTGTCTCTTGATGCAAAATACCGGGAAAATGATTGATAAATTTAACAGTGATGAGGCAAAGGCTAAATTGAAGATTCATTAAGCTTCAAATCCACAATCTCTTTTAATGAAAATGCAGCTGTGTGTCATAACAGTGGACAAAAACTGTTTAATATTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAAGGCACTCACAGACTGACTTTTGAGCTCACAAGATAAGACAATATCTCATATTTATTATTCACTAGAAGTAAAACTGAAGTCATCATTACATTTGTATATTGTGTAAATGTGAGTGTTTTTGTGAAGAGTTTGCTTGATGTTTTAG
Seq C2 exon
GTGGTGAAGGCTTTTGTTGTGCTGACAGCAGATTTTAAATCAAGAGCCCATAAGGAACTGATCAAGGAACTGCAAACACATGTAAAGAGCATCACGGCTCCTTACAAATATCCACGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004880:ENSDART00000041806:11
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:
PF131931=AMP-binding_C=PU(32.1=76.5)
A:
NA
C2:
PF131931=AMP-binding_C=FE(48.1=100)
Main Inclusion Isoform:
NA

Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTATTGGTCCATTTGAGGTGGA
R:
TGCGTGGATATTTGTAAGGAGCC
Band lengths:
214-1304
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]