RnoINT0010260 @ rn6
Intron Retention
Gene
ENSRNOG00000012892 | Abca4
Description
ATP binding cassette subfamily A member 4 [Source:RGD Symbol;Acc:1309445]
Coordinates
chr2:225767387-225767959:+
Coord C1 exon
chr2:225767387-225767507
Coord A exon
chr2:225767508-225767896
Coord C2 exon
chr2:225767897-225767959
Length
389 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
AGTTTCTTTGAATTTTACAGGTT
3' ss Score
8.25
Exon sequences
Seq C1 exon
GATCGCTGAGCCTGCTAGAGAGCCCGTTTTTGATGAAGATGATGATGTGGCTGAAGAAAGGCAAAGAGTTATGAGTGGAGGAAGTAAAAGTGACATCTTAAAGCTAAACGAACTAACCAAG
Seq A exon
GTGAGGAGCGGGTGTGGGCGATGTTTTCTTGGAGTTGCAGGCTGGGCACACAGTTGGTGCAGGAGCACCGTGCCATCCCGGAATTGTCACTTGCCTCCTGGGACCACCTATTTCCCACGATATTGTCCCTGCTGGGTGCTGTGGGGCCTCCAGAAGAGCTTCTCCAACTGAGCATTGGCACGTGTTGCCTGCTCTGTTTGTGCAGGGCATGGTTCACCCTCCACATGGCACTCTGTGCCGAGACTCCTCTCCCAGTGCCGTGTTAATGTGTAGCCTTCGTAGTGTCTGCGGCTTTCTTCCAAACTACTCTGTGCTGCCTTTTGCTCTCACTCCTCTGGCCTGCTCTACCCTTGTCTCCGTCTTCAGCCCAGTTTCTTTGAATTTTACAG
Seq C2 exon
GTTTACTCAGGCTCCTCCAGTCCAGCAGTAGATCGGTTATGTGTCGGCGTCCACCCTGGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012892:ENSRNOT00000017878:41
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.098 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(7.6=52.4)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]