RnoINT0010303 @ rn6
Intron Retention
Gene
ENSRNOG00000004378 | Abca5
Description
ATP binding cassette subfamily A member 5 [Source:RGD Symbol;Acc:628661]
Coordinates
chr10:98578987-98580761:-
Coord C1 exon
chr10:98580642-98580761
Coord A exon
chr10:98579137-98580641
Coord C2 exon
chr10:98578987-98579136
Length
1505 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAC
5' ss Score
7.07
3' ss Seq
TCTTTTAAAAATTATTTCAGATG
3' ss Score
7.57
Exon sequences
Seq C1 exon
GCGAGCCATTCGAACTGCGTTTAAAAACAAGAAGCGGGCTGCCCTCCTCACTACGCATTACATGGAAGAGGCGGAGGCTGTCTGTGACAGGGTGGCCATCATGGTGTCCGGGCAGCTAAG
Seq A exon
GTAGACATTTAAACAGCTCACCTTTCAGACAAAGAGAGGGAGGGCAGATTTTTAAATGTGATCTTTAAAAAATGTAGAGAACTATGCATTAATTTGAAATGTCAAAACTTTTAGTTTTAAAAATCAGTTTTGTATAGAACATTTTGGAAATACATGTATATCTATATTTTATAAAATATGTCCAGCTACTACCTGCATTCATATGTTTTTATGTCTTGTGTTTGTTATTTAAAAACTATTAAACTATTTTAAAATAATGGACATTGTTTTGAATTATAACACAAAATATAAAATAGTATTTGAGCTTATATTTGCATAAAGAAATAGTTGATTGAATAATTGAGTGTGTGCAAAGAGGCAGATTTTCCTTCACGATGGTTTCAAGTAATCTATGTCTGTATTGTTCTCTCAAAGGAAGCTTACCCGTTCTTGATCTCAGGTGAATGCTGGTTATAACCAGTTTTTCCTAGAACACTGAGTAAGGAAAAGGAGTAAGAACTGTGAGAGGTAGTGTTCACGGCTGAAAAGCTTACAGACACCCTAACTGAGCAGACACTGCATATCCCTGAGTGTGCTACAGTGTGGTGAGGTGCACACGCAGATGGGGTTCTTTGTGCACAGCTCATAAGCCTGCTTTAACACGGAGGAAAGTAAACACAGATCGAAGGGCATCCCAGCAAGACATGTGATCGGAATTCCTTAAAACTGTGCAAGTCGGGAGAAAGGAGGACTGAGTAATAAATGTCCTTAGCATTTGAAACGAGAGAGACAGCAACTAATTGCAGCATGGAATAGACCCCTAGAAACTAGGTGTAGCTTGGAATAGACCCCTAGAAACTAGGTGTAGCTTGGGATAGACCCCTAGAAACTAGGTGTAGCTTGGGATAGACCCCTAGAAACTAGGTGTAGCTTGGAATAGACCCCTAGAAACTAGGTGTAGCTTGGGATAGACCCCTAGAAACTAGGTGTAGCTTGGGATAGACCCCTAGAAACTAGGTGAAGCTTGGGATAGACCCCTAGAAACTAGGTGTAGCTTGGGATAGACCCCTAGAAACTAGGTGTAGCTTGGGATAGACCCCTAGAAACTAGGTGTAGCTTGGGATAGACCCCTAGAAACTAGGTGAAGCTTGGGATAGACCCCTAGAAACTAGGTGTAGCTTGGGATAGACCCCTAGAAACTAGGTGAAGCTTAGGATAGTCTCCTGGAACAAAAGACACTAACAGAAAGGAGCAGAATCAACCCAGGTCTGACCCTGGCCAGCCTTGTGTAATGGAGGTCACTTGATTTTGACAAACTTGTAAGAATAGAAGAAGAAAATATTATGTAAAATGAGACTAGATAAAGAGTGTATGAACATGTTGCATGATGTTTGCAACTTTTCTATACGTGTAAAGGATTGCCAGAGTCATTTTATAAAAAAAAAAAAAATGTAGCAGAGATTTAAGGGAGAAATCATTCTTTGAAAACGGTCAAGCCATTTTAACTCTTTTAAAAATTATTTCAG
Seq C2 exon
ATGCATTGGAACAGTACAACATCTAAAGAGCAAGTTTGGCAAAGGCTACTTTTTAGAAATTAAACTAAAGGACTGGATAGAAAACCTGGAAATAGATCGCCTTCAAAGAGAAATTCAATATATTTTCCCAAATGCAAGCCGCCAAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004378:ENSRNOT00000005848:36
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCCATTCGAACTGCGTTTA
R:
GCGGCTTGCATTTGGGAAAAT
Band lengths:
260-1765
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]