RnoINT0012386 @ rn6
Intron Retention
Gene
ENSRNOG00000019180 | Acsl4
Description
acyl-CoA synthetase long-chain family member 4 [Source:RGD Symbol;Acc:69401]
Coordinates
chrX:113623845-113625488:-
Coord C1 exon
chrX:113625311-113625488
Coord A exon
chrX:113623955-113625310
Coord C2 exon
chrX:113623845-113623954
Length
1356 bp
Sequences
Splice sites
5' ss Seq
CGCGTAAGT
5' ss Score
9.93
3' ss Seq
TTCATGTTTCCTTCTTGTAGTTG
3' ss Score
8.49
Exon sequences
Seq C1 exon
TTAATTCTTGGGAATTATAAATGGATAAACTATCTTGAAGTGAACTGCCGAGTGAATAACTTTGGAAGTGGCCTCACTGCACTGGGACTGAAACCAAAGAACACCATTGCCATTTTCTGTGAGACCAGGGCGGAGTGGATGATTGCAGCGCAGACCTGCTTTAAGTACAACTTTCCGC
Seq A exon
GTAAGTACCTTGGGCTTTTTGCAGGGCAGAGGGAGTGTTTTGCTGATATGCAGAGTGTTAGCGCGCGCGCGCGCACACACACACACACACACACACACACACACACACACACACACACACTATTAGCTCCAATTAAGTAAAGATGGCAACACCTTAGAGTTGGTTTAGGAGCTAAGACCTTAGTAGGTATAATTCATAGTTTTATTTTTTAATTAGAAATGAATTATACCATAAAAATTTAGAAGAGGAAGGTTTAGTTTCTGGAGATTGTACAAGAAAAGGGATTGCTTACACTGTCAACTCTATCTTGTTTGACTTCATTTTCCATATGAAATAAGCACGCGCCAGCTCCAATTGGCACCAGAGAGTCAAGAGTAAAGGTGGGTCTGTATGTTTGCAGTTGGCAAGCTTATGTTTTTGTCACTGTACAGAAATCATTTTTTTCAGATTTAAAAAAATTAATTTTGGCATCTGAGTATATGCCTGCATTTATGTAAATGCAATGCATGAGTGCTTGGTGAGCAGAAGCCTGCGACTAGAATTACTGGTGGATCTTAGCAGCCACGTGGATGCTGGGACCCGAACCCTTATTCTCTGCAAGAGCACCAAGTCTGTAGCCACCGAACCTCTACAACCCAGAGAACTAATTTGTGAAAATTGAGCACAGAAAGATGCCTTGCTGTACCCTAAGTATTTGGCTGTTTTAGGACATAAGAGTTGTGCAGGTGAAGTAAGCATGGGGAGCAATTTTTATTTCAAACAAAGATAGATGCTACAAAAAATGTCCCCATAGGTTCTTGTCACCCACCTTCACCAAGCAATAAGAAAACTGCTAGTTTCTGATGTGCAGGCTATTTCTAGTTACCGGAGGAAAGCTGGTTTATCAGATGTCACTCAATTCCAACTGATTTTACTATTAGTGTATGTTAGTGTATGCTGTTGTCCGTTGGGTCCTCTAGAACATACCTACTACCTTGCTAGGAAAGGCAGGAAGACCACCATTAGAAATTAGAATTAGAAATTGACCCACTGAAAAAACCATCTTAGAAGTGTTAAGGACATTATTTGAGGTTGATCTGACTTGAGATCCTGAAATTTATTAAAAAATCTGGCTTACCTAGTCTTCGGGACAATGACCAATGAAAGTATGTGTCATAGGCAAGTTGTTTCTGGGCTGCACCCTGACACAACTTTTTCCAGTTGGATTCCTGGGAATTTGTAAGGCCAAGTTTGAGGTACCCAGACAACTTTGAAATCAACTCATATCATAAAGTGATTTTGTGTCTGGAAAGCCTGCCTTAAATCACATATCCTCAAAAGGTTTAAGTATACGGTTTTCATGTTTCCTTCTTGTAG
Seq C2 exon
TTGTGACTTTATATGCTACCCTTGGCAAAGAAGCTGTCGTTCATGGATTAAATGAGTCTGAGGCTTCCTATCTGATTACTAGTGTTGAACTTCTGGAAAGCAAACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019180:ENSRNOT00000026057:4
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(12.4=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(7.5=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:
AAACTATCTTGAAGTGAACTGCCGA
R:
CTTCAGTTTGCTTTCCAGAAGTTCA
Band lengths:
262-1618
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]