RnoINT0012477 @ rn6
Intron Retention
Gene
ENSRNOG00000031211 | Acsm5
Description
acyl-CoA synthetase medium-chain family member 5 [Source:RGD Symbol;Acc:1309578]
Coordinates
chr1:189262672-189264672:+
Coord C1 exon
chr1:189262672-189262771
Coord A exon
chr1:189262772-189264552
Coord C2 exon
chr1:189264553-189264672
Length
1781 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
CTGGGGTTCTCTCCCTGCAGGTG
3' ss Score
12.27
Exon sequences
Seq C1 exon
CTACCGGATTGGGCCTGTGGAAGTAGAGAGTGCACTGGCTGAGCATCCGGCTGTCCTGGAGTCTGCTGTGGTCAGCAGCCCAGACCCCATCCGGGGAGAG
Seq A exon
GTAAGCCTTCAGGGAAGAACAGAAGGTCATTGTTTTCTACTTATAAGCACCCAAAGGAACAAGGGGAATGAGGAATGGCAGATCCCTCCTTTGGTCTCAGCCCCACCCCTAGAACCACAAAGCTGAAACCCAACCTGCAGTCACACATTCCTTCGGATTAACCTCCTTTAGAATCATAAATACACTCTACAAAGGCAAGATGGGAAAGCCAAATTCCATTTTACTTGGACAGCAGACAATCCAAGCAATCCAAATGAGGCCGAACAGGGTCTGACACACAATAGGTTTAACAGTAATCATAGTAAGAGGTAGCTCTTCTTAAAAGCCAGATTTGTTTGAACACACAGGGATAGTGAGTTCACACCTTTGGGAAGTGTGCAAGGAGAGCTACCCCTTAGCAAACGTTTGGGAAGTGTGCAGAGTTTAGTGTTGGTGTGGACCTGCAGCCAAGTGGCGTTTTAAGCACTTCCATTGCTATCAGAAAGTATTCTTTACTTTATTTTGAGGTTATATAATATATATAATAATATATATATAATAATAACATTTTCCCCTTCTTTTTCCTTCCTCTAACCCTTCCCAGATAGCTCTTCTTGCCCTCTTTCAAATTTGTGGCCTCTTTTATCATTAATTGTTATTATAAGTATATACATATATCTAATATATGTATATATACATGGAATATATGTATATACATATATATTCCTAAATATAACCTGGTCAGTCTGTGTAATGTTATTACTTGTATATATGTTTTCAGGACCGACCGTTTGGTTTTGGATAACCAATTGGTGAACTCTTCCCTGGGGAAGACTGTTTCTCCCCTTCACCACATTCCCCAGTTGCCTGTAATTCTCTGTGCTGCATAGATACCTGTGGGCTTTCCCCTATCTACTCTGGCATGTTTATTGGTATTGTCCTTGTTGGGCTCATGTTGAGGCAGTCATGTTGGTGAGACTTTATGGATGTAGGCTTTGACATTTCTAGGAGACTAGGTATTTTAAAAATGCATTATTTTATGTGTGTGCATATGTGTGTGTGTGTGTGTGTGTGTGTGAATAAAAGTGCACACGTATCACAGCACATGTGTGGAAGTCAGAGGACACCTTGCAAGAGTAAAACCATGTAGGCTCCATATAATGAGCTCAGGTTGTCAGGCTCAGCATCAAACACATTTACCCTCAGAGCCATCTCGACAAGCTTAGGAATTGTGTTCTGAACAGTTGTTCCCTCTTTATCAGGAGACAAATTCCAGGGGAAACCTGGGCAGACAAAGCCAAGGCACAGAATGCCCCTTGGAATGACTGAAACAGAAATGGTGATATAGCTGCATGTTTGCTGGTGGGAAATGTACAGAAAGCACTCTCCAAAGACCAGAGGCCCTGGAGCAGGGCTGCATTTTTCTCAGTCCTGCCTGAACAGCCCCTGCCCCTCTATCCTCCTGCAGAAAAACCTAGAAGTGAATGCCATTGGCATTGGGAAGGAACTTCCTCCTGGTCTTTATATCTTATGGGAATTAGTGTTGGCTTCTAATGGAGCCATTGTAAGTATGGCACGGAAGATGAGGCTCCAAAATGATTCCAGAAAAGCCAATGCTCCAGTACTTTAGTATGAACAGGCAGGAAACAGGGAAACAGTGTTGTTCACGTCACTGTCTGTGCTTGAGGATCTAGTTGAACCCTCATGTTTAAGTTTAAGTAAGCACATAGTTACAAGACTAGCTTAAGGAGAAAAGCATCATTTCCGAAGGCTTGATCCTTTCTGGGGTTCTCTCCCTGCAG
Seq C2 exon
GTGGTAAAGGCGTTTATAGTCCTTTCTCCAGCCTATGTGTCTCATGACCCAGAAGCCCTGACCAGGGAACTCCAGGAGCATGTGAAGACAGTGACTGCTCCATACAAGTACCCCAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000031211:ENSRNOT00000046025:12
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=0.025
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 Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGATTGGGCCTGTGGAAGTA
R:
TCCTGGGGTACTTGTATGGAGC
Band lengths:
214-1995
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]