RnoINT0010470 @ rn6
Intron Retention
Gene
ENSRNOG00000004147 | Abca8a
Description
ATP-binding cassette, subfamily A (ABC1), member 8a [Source:RGD Symbol;Acc:1307333]
Coordinates
chr10:98374646-98375228:-
Coord C1 exon
chr10:98375087-98375228
Coord A exon
chr10:98374832-98375086
Coord C2 exon
chr10:98374646-98374831
Length
255 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TGGGTCGTCTCTTCTTGTAGATC
3' ss Score
9.42
Exon sequences
Seq C1 exon
GCTGTCCTGGGGTTTGCTCTATGGCGTCATTGTCTTCATCGTGACCCTTTTCCTGACATTCGTTGTATATTCCGTCCAATTTGTCTTTATGACTGGATTTATGATGATCTTCAGTCTCTTTTTCTTCTATGGCTTATCTCTG
Seq A exon
GTGAGTTGGTGATGACAAACTCCACTTGGTTTTCAGTCTGAGAAACCAAGTTGCTACCAATCGGGTGACTTCTGTATATACCTATTTTGTACTTGCATGAGACAAGCTGTAGTGGAAGAGTATTTATCTATAGTTCTGTGTAGCTTCTGTAAGGTCAGTAGAGGAAATCTGTAGGTTTACATAGGAAATCATTCGTTGTGTTATAGTAATAACTCTCAGATAAACGTAAACTGACTGGGTCGTCTCTTCTTGTAG
Seq C2 exon
ATCTCTTTGTCTTTCTTAATGAGTGTCTTACTAAAGAAGTCTTTCCTCACCGACTTGGTGGTGTTCTTCCTCACTGTTTCCTGCGGAAGTCTTGGATTCGCAGCATTATACAGATACCTTCCTGTGTCCTTGGAGTGGCTTCTAAGTTTGCTAAGCCCTTTCGCTTTTATGCTTGGAATGACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004147:ENSRNOT00000005665:7
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=FE(12.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(15.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTTTGCTCTATGGCGTCAT
R:
AGCGAAAGGGCTTAGCAAACT
Band lengths:
298-553
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]