RnoINT0012460 @ rn6
Intron Retention
Gene
ENSRNOG00000032246 | Acsm3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:RGD Symbol;Acc:62086]
Coordinates
chr1:189530883-189532077:+
Coord C1 exon
chr1:189530883-189531006
Coord A exon
chr1:189531007-189531996
Coord C2 exon
chr1:189531997-189532077
Length
990 bp
Sequences
Splice sites
5' ss Seq
ACGGTACCT
5' ss Score
6.79
3' ss Seq
ACTTTGTTCTCCTTGCCTAGGTG
3' ss Score
10.17
Exon sequences
Seq C1 exon
CTATAAGTTCAACAGTTTGAAGCACTGTGTGAGTGCCGGGGAACCCATCAACCCTGAAGTGATGGAACAATGGAAAAAGAAGACAGGACTAGACATCTACGAAGGATATGGACAGACAGAAACG
Seq A exon
GTACCTGCCCCACTGAACTCAGGGCTAGATGGGAATTATATAAATAAAAGCCAAAGTTTCTAATGTGTCTTATGATCACTGGAGGGATACTAAAAGGTATGGTTAGGAAACTATTTCTTAAAAATAAACACTTGAGAAAACCTAATTGAAAAAATATCTGTGTGACATTTTTAAGAAGAATGATTAATTGACCAAGGTGAGAATGTCTCAATGGTTTTAATGAGAAAAAGGTATTGGATCTATGTGACAGGCTGTCTAAAGAAAAAAGTTAAAGCTGTGAGTGAGCTTCTGGTTCCCTGGAGATTCCTTACAGAGCAGCGGCTAAAACATCCCTATAAAGCCTGCACACTAAAGGTAGAAGGAGGAAGAGCAAGGTTGTTTTACATTGTGAGTTCAAAACCATCCTGAGGCCTGTGTGCATGAGCAAAATACATAAATAATAAGGTAAAATAAAAAATGGGCTTTTTAAAGAGCTCATGCAGATAAATAAATTGTAGGAGGTTGCATGGCCTTAATGGTAGTGTGCTTTCCTAGCACATGCGAGGCCTCAGTTCAATCCTCAGCACCAATAAGAAGCTCAGAGATAACAAAGCAAGAATGAAGTGGTTGTTTTGTAGCAGAAAGGGAGACAAGATGATCAGAGAAAGGGAAAAGTGGAACATTTTTCATTGGCTTAGTTTTAACATTTGAAACTTTTAAACCATGAAAATTATTACCTGAAAACATTTAAATTTCAAACTTAACAACTATGAAAATGGACACTTTTTTTTAGACACACCCAGCCATGTGATCGTTGTGTTAATCTACATGAAAAGTTAGCATATTCATGTAGTTTTTTTTCTTATATCTCTATACTCTGTGACAGCAGAGTTGATTGGGTCTTAGTTGACCCTGCTGCACAGCTGAGTTCTCTGTGGACTGAATGCACAATAGATGGAGGCATAGTTTACATTGCTTAAAGTGTTGCCGTACTTTGTTCTCCTTGCCTAG
Seq C2 exon
GTGCTGATCTGTGGAAATTTCAAGGGGATGAAAATTAAGCCTGGCTCAATGGGGAAGCCCTCTCCTGCTTTTAATGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032246:ENSRNOT00000020039:9
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(9.9=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(6.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTTTGAAGCACTGTGTGAGT
R:
CACATTAAAAGCAGGAGAGGGCT
Band lengths:
190-1180
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]