RnoINT0010223 @ rn6
Intron Retention
Gene
ENSRNOG00000050057 | Abca3
Description
ATP binding cassette subfamily A member 3 [Source:RGD Symbol;Acc:1307174]
Coordinates
chr10:13736455-13736936:+
Coord C1 exon
chr10:13736455-13736564
Coord A exon
chr10:13736565-13736671
Coord C2 exon
chr10:13736672-13736936
Length
107 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTTGGCCATTTCTCTTGTAGAAA
3' ss Score
10.09
Exon sequences
Seq C1 exon
TTGTCCATCTTTAAGTCTTGATCTCTGGTTGGCGCTGGCACCGTGCCTGCAGGAAGATGGTGGTGCTGCGGCAGCTCAGGCTCCTACTCTGGAAGAACTATACTCTGAAG
Seq A exon
GTGAGTGCAGGCCCACGGAAGGGTGGCCCTTGTCCAGCCAATCCCCAGGGAAAGCCCTAAAGGACAGAGTGCTGTGGCTGTCACCAGCTTGGCCATTTCTCTTGTAG
Seq C2 exon
AAACGGAAGGTCCTAGTGACAGTCTTGGAGCTTTTCCTGCCCCTGCTGTTTTCTGGGATCCTGATTTGGCTTCGCTTGAAGATCCAGTCGGAGAATGTGCCCAATGCTACTGTTTACCCAGACCAGCACATCCAGGAGCTGCCCCTGTTTTTCTCATTCCCTCCACCTGGGGGGAGCTGGGAGCTCGCCTATGTCCCTTCCCACAGCGATGCTGCCAGGACCATCACAGAGGCAGTGAGAAGGGAATTCATGATCAAGATGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050057:ENSRNOT00000072789:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(19.2=96.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCAGGCTCCTACTCTGGAA
R:
ATCGCTGTGGGAAGGGACATA
Band lengths:
247-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]