RnoINT0010312 @ rn6
Intron Retention
Gene
ENSRNOG00000004378 | Abca5
Description
ATP binding cassette subfamily A member 5 [Source:RGD Symbol;Acc:628661]
Coordinates
chr10:98617473-98618674:-
Coord C1 exon
chr10:98618527-98618674
Coord A exon
chr10:98617642-98618526
Coord C2 exon
chr10:98617473-98617641
Length
885 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
GTTTTTATGTTCATTTTTAGGGG
3' ss Score
10.54
Exon sequences
Seq C1 exon
GTCATGCATTTAGAAGATTTCAATGAAGGAGCCTTATTTTCTAGTTTGACTGAAGGCCCCTACCCGCTAATTATCACCCTTACCATGCTCGCTCTGGACAGTGTGTTCTATGCCCTGCTGGCTGTGTACCTTGATCAGGTCATCCCAG
Seq A exon
GTGTGTAAAGGCTCTGAAGTCATTCTGCTCATATACCGTCAATTGAATTTTCTCCTAGCCAGAGTATTCTGCATCATACTGTGGTTTAATCTACTTTTGAGTAATATTTATACAAATATTCACAGTACGTGGTCTATTACGTATTCACTAGCCCCTAGTGAATATGAAGAGATTGTGTAACAAGAGAGATGTTTGCTTTGAAAGCCTAGCTGCACTTCACAACTCAGTCCTTCATTATAATAATCTTTTAAAACTGTTTTGTTCTACTCTCTAAGATCCAAAGCAGCCTCATAACTCCAGACACTTTCCTTCATCTTTTTAAAATTTAGCTTTATTTTTAAAGATTAAAAACCAATTACGTCATGTCTCCTTTCCCTTTCCTCCCTCCAGGTCTTTCCCAACCCCCATCCAACCCCTCCCATGGCCTCTTTGTTTTTGTTTGTTTTTTTGAGATGGGGTTTCTCTGTGTATCCCTAGCTGCCTTGAAACTTGTACAGACCAGGTTGGCCACCAGCTCAAAGATCCACCCGGCTCCTTTTCCCAGGTGCGGGCACCACCACTGCCTGACGTTGGCCTCTTTTTTGTTGTTATATTTTCTATATTCCAGGCCCGTCTAATATGATAACTACTAGTTAATAGGACTTTATTTATTTAATTTTTACTTATTTTCTTTGAGATATGGTTTGCTGGTCTGGAACTTGCTATGTAGCTTCTGCTGGCCTTGAGTTCTGCCTGCCTCTGCTTCCTAAGTGCTTGGATTGAAGGTGTGTGCTATTGTACCCATGTATTAGGACTTTTAAATTTAAAATGAAAGTAAGGTTATTTACTATGATTAGAATGGTTAAAAACAATTTAATATAACTCAGTTTTTATGTTCATTTTTAG
Seq C2 exon
GGGAATTTGGCTTGAGGAGGTCATCTTTGTACTTCCTAAAGCCATCATATTGGTCAAAAAACAAAAGGAACTATAAGGAGCTATCAGAGGGCAACATCAATGGGAATATTAGTCTCAATGAAATTGTTGAGCCCGTTTCTTCAGAATTTATAGGAAAAGAAGCTATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004378:ENSRNOT00000005848:9
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:
PF126982=ABC2_membrane_3=PD(10.9=84.0)
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:
TTAGAAGATTTCAATGAAGGAGCCT
R:
TCCTATAAATTCTGAAGAAACGGGCT
Band lengths:
294-1179
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]