RnoINT0010430 @ rn6
Intron Retention
Gene
ENSRNOG00000004040 | Abca8
Description
ATP binding cassette subfamily A member 8 [Source:RGD Symbol;Acc:1307069]
Coordinates
chr10:98286860-98288668:-
Coord C1 exon
chr10:98288442-98288668
Coord A exon
chr10:98287002-98288441
Coord C2 exon
chr10:98286860-98287001
Length
1440 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GAATTTTGTTTCCACACCAGGCT
3' ss Score
5.08
Exon sequences
Seq C1 exon
ACCACGACAAACCATTCGGTGATGGAGAAACTGCTGTCAGTTTCGGGGAAATTCATGAAGATCCATCCTTTCGTCAGGCAAGAGGGGATTTTGACTGATTTCTTCATTTTCACCTGCATCGTTTCCTTCTCCCCAATCACCTATTTTGTGTCAATCAGTGTTGCAAGAGAGAGGAAAAAGATGAAGGGCTTGATGATGATGATGGGTCTTCGAGATTCAGCATTCTG
Seq A exon
GTGAGTCAAAGGCAGGGCAAACAACTTAATGAGGTGCCCTGAGAAAGTGGGCATTTTGGCCTCTGTTTGTTAGAACCAATCGATGTCTAGCTTTTCCCATTATCCCTCTGCGCATGACAAGTAATCCTTAGTGTGATGTTCGCCATGCTGACGCTGGGCGTCTTTTCTGTGCCTTTCTGACTGAAGGGAAGAGCCTGGGATTTTGGACGCTGAGAGTTGTGAAGCAGGGATTATTGGATGACTGTGCACTCTGGTGATAGTGTCGAGAAAGTTACAGACTGGTATTGCAGACAGTCGCGGGTGGCATAACCACCAGAGCAGGATCACTGGGATGAAAGACACCAAACGTCAGGAGATTCTTCAGGACTGCAGAAGGGGATGGGCGAGTCTGAGGGATGGGTTGGCAGAATGCGATCGTGGACGTGGCGTAGGTAGTTTGATCTTCATATACTGAGTCATTTTCGAGAACAGACAGGCGTCTAGGAAAGGCAGAGGCCTGGAGTTGGCATTTGTAGAAAAGGAAGCAAAGGGGGCATTTGTAGAAAAGCAAAGCAAAGCAATGTTGGAACAAATCAGAAAGAGTTCCTGCTAGGACTACAATTCTAAAATTTTGCGTCTTTGTATGTTATACCCCTTCTATTATTATGATTATGATTACTGTGATTATATTATTATGCTGAATTGTTACTGATAAAAAAAAGGTAGTGAAGCTGTGAAAGACACCAGAGCCAAACATCTGGACATGAATCATAACTATTTAACATCTGCATTTGCCAAATTCTCCACCAGTAAGACAAGAAAAATACTAAAACGGAATTTCTGCATAGTCTTGGAATGGGGATCTTATGATTGAACATTTGCCATGTTCTTTTTTTTTTCTTTTTTTGTTTTTCAGAGCTTGGGGACCGAACCCAGGGCCTTGCGCTTGCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCATTTGCCGTGTTCTTAAAACATTCCCTCACACATAGCAGCTGGCACCTGCATTAGAATTGTTTGGCTGGTTTCTCAGCTACATTTTAAACTTGTCCTTATTATTATTTTACTGTACTCCCCATAGAATATTTTCAACAAGGAAATTGATGAGAAAAGGCACGCTGATAATTTCGAGAAAAGCGAAATAGAATTATCGAACTTGGGAGAAGGCTTAGTGGGAAAAAGAATGTTTGTAGTCCCCAATGGATTCAGCCCAGAACTTATACCTCGTGGCTGCACATCCTAAAGCACACAGTACCTGAAAAATGGCAACATGGAAGAGTGAATGAATGAATTGAATGAATGAAGTACTAAGCGGCGAAAGCATGCGTGAGCAAATGGGTGGATTTTAAAATTATTTTGAAATAGATCATAAATCCTCCTTATCCGCTGTGCTTCAGAGACTAAAAGAGAATTTTGTTTCCACACCAG
Seq C2 exon
GCTATCCTGGGGTCTGCTCTATGCTGGCTTTGTCTTCGTGATGGCCCTATCCCTGGCACTTGTTATCAAGTCTGTCCAGTTTCTTATTCTGACCAGCTTCACGGTGGTCTTTAGCCTCTTCCTCCTGTACGGATTGTCTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004040:ENSRNOT00000005489:5
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(19.2=100),PF0308311=MtN3_slv=PU(53.0=57.9)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(12.1=100),PF0308311=MtN3_slv=PD(45.8=79.2)
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:
CGGTGATGGAGAAACTGCTGT
R:
CCGTACAGGAGGAAGAGGCTA
Band lengths:
343-1783
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]