RnoINT0010097 @ rn6
Intron Retention
Gene
ENSRNOG00000027505 | Abca15
Description
ATP-binding cassette, subfamily A (ABC1), member 15 [Source:RGD Symbol;Acc:1305981]
Coordinates
chr1:190076898-190077606:+
Coord C1 exon
chr1:190076898-190076978
Coord A exon
chr1:190076979-190077341
Coord C2 exon
chr1:190077342-190077606
Length
363 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TCATTCTTTAACTTTTTTAGAGG
3' ss Score
7.84
Exon sequences
Seq C1 exon
AGTTGAACTCTGTTCAAAACAATGGCTTCACCAGCATCAAAAAAACTTTTGCTCCTTCTGTGGAAGAACTTTACTTTAAAG
Seq A exon
GTAAGCTGAACTCTGCACAGTATTGTTGCAACAGCTCAGAGATGGCCAGGGGGTAATTCTCACATCGTAATGGCTGCCTTTGATGTTATACTACTTAACTTTTCTTAGTTCCGGGGTTGGGTCATTCTCTTCTTAACATAGGACCTACACAGAGTGAGGTAATAGCAGAATGTCACATAGGAGAGAGAAAGATGACAGTCTTTGAACTTCTGTCTGTCATACAGTAAAGCTATGCATATTGGTCACCCATGTAATCTAAATGAGTGAAGTAACTTCTCAGCTTAATACATACACATAGCCATTTACTAAATCAACAACCCTTGGGAAAACTAACATAATATTATCATTCTTTAACTTTTTTAG
Seq C2 exon
AGGCGGAAGTTTGGGGCTTTAGTTACTGAGATAATCCTGATGCTTGCGTTCAGCATTGTGCTTTTGACAACACGCCACCTTCTTAGCATAAACAAGATGGAGTCCCTGCATTTTCCTGACCAACCTGTCGGTGCTGTTCCTTTCTTCTTCCGAGTCTCTGCCAACAGTTCTCGTCCTTGGGAGCTGGCTTATGTGCCTTCCAACATCACGGTGGTACACAATATTGTCGAAAATGTGAAAAAGGATTTAAACTTCCCTATGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027505:ENSRNOT00000037026:2
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(19.3=95.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACTCTGTTCAAAACAATGGCT
R:
CTGCCATAGGGAAGTTTAAATCCT
Band lengths:
342-705
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]