RnoINT0010429 @ rn6
Intron Retention
Gene
ENSRNOG00000004040 | Abca8
Description
ATP binding cassette subfamily A member 8 [Source:RGD Symbol;Acc:1307069]
Coordinates
chr10:98288442-98289960:-
Coord C1 exon
chr10:98289857-98289960
Coord A exon
chr10:98288669-98289856
Coord C2 exon
chr10:98288442-98288668
Length
1188 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
CAAATATTACATTTCTTCAGACC
3' ss Score
6.19
Exon sequences
Seq C1 exon
CTCATTGTTTTGAGATGTATGAAGATGTTGACTGTCTGATATCAATATTCTGGAAGAAAGGATTTGTGGCTCTTCAAGCTGCCATCAATGCTGCCATTATAGAA
Seq A exon
GTAAGTGCAAAATGTTGAATGCACTCCCATACACAAGACAAATTACCAGAGGCATAAAAGATACCAGGAAGAAAATACACATGGCTAGCCCAACTCACTCACTCAAGGAAAAAGTTACTAAAGTTGCTGTATGTTATATAACAATGACAGAAATTGGAGGGAGGGTGCCTCTTGCATGATATCAGCCTTGTCAGGAAGTCATGTATGTAAAAAGAAAATCATCAAAGCTACAATAGGGGCTGTCATAGTGTTCTGTTGCTGTGAAGAGACAACATAACCAAATCAACTGTTATGTTAAAAAAGCATTTCACTGCTCACAGTTTCAGAAGGTTAGTCCATGATCATCATGTCAGGATGTATACAGGCTTGGTGCTGAAAGAGTTGTTTTGAGTGAGTGTTCCACCCTGATCCACAGGCAATGCACAGAGACCATAAGAATGAGCCTAGAATGGGCTTTTGAAAACTCAAAGCACACCCCAGTGACTCACCTCCCCCAACAAGGCCATCCTGAGTCCAGCAGGGCCACACCTCCTAATCCTTCCCAAATAGTTCCACAAATCAGTTTGCCTTTGTGACCCATTATGAAAACTACTATATTCACCTTGCCTTGGGTAATTCAGTGCTGTTCTCTTACCCTTGCTTCTTTGGGGGTAGGCAATTAAACCCATAAAATTTAATTCATTCTATTAAGTATCAATGTCTTCAACCCTACTAACTGAGACCAAGCATTCAAACATATGGATGGGATCCATTCTCATTCAAACCACTATGTATGTGGACACAACGTCCTTGTAAGTGAACAAGGCAAAAGTTTCCCAGCCTAGGATGCCATGGAATAATTTCCAGTCTATTTCCAGAATAATAGTTGAACTTGAGACTTGAGGTAAGTAAGAGGTGTATTGAATGTACAAGTTTAGAAAAAGCATTTCAAACTATTCTGTAGTGATGTTAGACAGGGTGTTATGGACAGGAGGCCAAATCTGATCATTGCGGATCAACTCAGAGTGCCTGACAAAAGGATGGATCTTCATGAATCCATCCAAGTGGATCAGTGGCAGGACATGAATATGGAATTTTCCTCAAGCAGATGATTATGAAAGGCCAGTAAGGTATTCCCTGGGTGGTTTAAAACAGAACATATCATTCATGATCTTGAAAAGTTTATTAACAAATATTACATTTCTTCAG
Seq C2 exon
ACCACGACAAACCATTCGGTGATGGAGAAACTGCTGTCAGTTTCGGGGAAATTCATGAAGATCCATCCTTTCGTCAGGCAAGAGGGGATTTTGACTGATTTCTTCATTTTCACCTGCATCGTTTCCTTCTCCCCAATCACCTATTTTGTGTCAATCAGTGTTGCAAGAGAGAGGAAAAAGATGAAGGGCTTGATGATGATGATGGGTCTTCGAGATTCAGCATTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004040:ENSRNOT00000005489:4
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(14.3=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(19.2=100),PF0308311=MtN3_slv=PU(53.0=57.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTTTGAGATGTATGAAGATGTTGA
R:
CAGAATGCTGAATCTCGAAGACCC
Band lengths:
326-1514
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]