RnoINT0010419 @ rn6
Intron Retention
Gene
ENSRNOG00000004040 | Abca8
Description
ATP binding cassette subfamily A member 8 [Source:RGD Symbol;Acc:1307069]
Coordinates
chr10:98247606-98248760:-
Coord C1 exon
chr10:98248640-98248760
Coord A exon
chr10:98247724-98248639
Coord C2 exon
chr10:98247606-98247723
Length
916 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
GACATTCTTCTCATTTACAGAAG
3' ss Score
8.49
Exon sequences
Seq C1 exon
AATCTCTCCAAGAAACAATGATGTGCATCAAAACCCAGAAGAGCCAGAAGGTGAGGATGAAGATGTTCAAATGGAGAGAATGAGAACAGCGAGTGCCTTGGCATCCACCAGTTTTGATGAG
Seq A exon
GTAAGCACACAAAGTAGCTAACTTTCCAACCAATGCAAATTTGTGTTCGTTAAAGCAACTGGTCTACCAGACTAGTTCTATGATGATGAATCGTTCCCTTCATCCTAACAAAAGACAGTAGCTGTTAGAAAGTGGTCACATTATTGATTACATCTAAATGAGCAGATTGAAAGTTAACATTTCCAATTCCTCAGTAAAAACTAAAATCAGAATACAGATTGTTGTGTTAGAAACTTGGCTCACCTCTGGACAGACCACACTAGACCAATACAGTTCCACATGAGAGAGATTTATTGTGGGGGAAGGGGCAAAGGGGGCAACAGAGACAATGAGGGAAAAGAGAGAGAAGAAGGAACAAAGGTCAGGAAGGATCTGCTTTGCATTTGGCTAGTGACAGAACTGCTCATAGGTTAGTGGGAGGTGAGCCAGGTGGACGCTGGGAATATATGGCGATCGCCATGGCAACAGACACATGGGCCCCTGTCGCCTATGGGTGATGTCACTGTCATCGCTGGGTTCAGAGGCGATCTGCAACCATAAAGATGATTCCTGATACCAACACAGGTGAAATCACTAAAGTCATGAAAGACTTTGAGAAAATGAGAGAATAGTGACAAATGTCACTGTTTTTAGTGAGAATGTGCAGTATTCAACATAAGACACACTGGTGCTTTTCATGGCTTTTGCATGTTTGGGAAATTAGGCAGGCTATATAAAATACTGTGGTTTTTGGTAGATGTCTTTGTAGGGGAGGAACATGGAATTCTCTCCAAAGACGAGGGCTAGGATAGAAGAGTAGTGGGTTAGGACAGAGCCTACTAGGATCTCTTTGATGCAGAACTAGGGCAGTGTAGGGGATACAGCTCATTTAGTCAGTGGAGAGAACAGCCTGACTTGACATTCTTCTCATTTACAG
Seq C2 exon
AAGCCAGTCATTGTTGCCAGCTGCCTACGCAAAGAGTACGCAGGGAAATGGAAACATTGCCTTTCTAAGAAGAAGGCTAAGATAGCCACCAGGAATGTCTCATTCTGTGTCAGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004040:ENSRNOT00000005489:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.463 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(7.1=25.0)
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:
ATCTCTCCAAGAAACAATGATGTGC
R:
CTTTCCTGACACAGAATGAGACA
Band lengths:
238-1154
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]