RnoINT0010449 @ rn6
Intron Retention
Gene
ENSRNOG00000004147 | Abca8a
Description
ATP-binding cassette, subfamily A (ABC1), member 8a [Source:RGD Symbol;Acc:1307333]
Coordinates
chr10:98344702-98345762:-
Coord C1 exon
chr10:98345625-98345762
Coord A exon
chr10:98344810-98345624
Coord C2 exon
chr10:98344702-98344809
Length
815 bp
Sequences
Splice sites
5' ss Seq
GAGGTTGGT
5' ss Score
6.36
3' ss Seq
TGCACCACTTCCATTCCTAGGAT
3' ss Score
8.64
Exon sequences
Seq C1 exon
AATTACAACTTTACATTGGCATGCAATACCAAGAGGCTGAATTGTTTTCCCGTTCTGGTGGACATAGTGAGTAATGCGCTACTCGGACTGTTCACACCATCAGTGCACATTCAAACTGATCGCAGCTCATTTCCTGAG
Seq A exon
GTTGGTATGTTCTTGTAGATTCTACTATATCTGGAGTCTACCAGGCTGTTCTGTTCAGAATAATCTCAGTGGTCTTGATAGCTTCCTTCATACATTAGATCACAGAATAATCTCAGTGGTCTTGATAGCTTCCTTCATACATTAGATCAGTATATATTAATTTTATATTAATTTAACATATAATATATCATATATCATTTACAGTATATCATATATGACTATGCATCTTCACCTGAGCTGTTCCCTGTGAGCAGCGAATGTTAAATTAGGAGAGATAAATCTAAGCACGCTGACTCACACCTGTAGTCACAGCACGTGTGAGGTATTGGCAGTATTATTATGAGTTCAAGTCCAACCTGCATTGCAGAATAAGACTATGTTGAAGAAATCAAAAGGAAGGGGAGAAAGGGGAGAAACCGATGGGAAGAAAACTGGGATGTGAAATTTGGGAGTTGGAGTTCCTAATTATTAAATTGATTGCAGTGGTCTAAAGTGACAAAATATCATAATAATTATTTAAAGCCTAAAAATTTTGATCATATTTAAGTGTTAGCCTAAACTTTAGAGTTTTACCATCATAATAACCCCTTGTTCTCATATCACTTTCCATTTTCAAAATCATATCATGTCGCTTCTTCCAATGGTTTACTTTTAAAATTGGATACATAAGCAAAATCTACGTTGAGAACTGGATTATCACGGAAGGAGGGGGAAAGCTCACAAGAGACCCAGGGCAAAATTTTAGGTAATTGATTATGTTTTGAGCAGTGTAATCCAGACAACTCTTTTCAACTTTGCACCACTTCCATTCCTAG
Seq C2 exon
GATACAGGCTACACACAGTTTTACCACTTGCTTTACATGTTCTCATGGATCCTTTTGATGGCCTGCGTCCCTCCTTACATTTCCATGACCAGCATTGACGACTATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004147:ENSRNOT00000005665:22
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(12.3=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(9.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTACAACTTTACATTGGCATGCA
R:
CTTATAGTCGTCAATGCTGGTCA
Band lengths:
246-1061
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]