RnoINT0010447 @ rn6
Intron Retention
Gene
ENSRNOG00000004147 | Abca8a
Description
ATP-binding cassette, subfamily A (ABC1), member 8a [Source:RGD Symbol;Acc:1307333]
Coordinates
chr10:98352297-98353883:-
Coord C1 exon
chr10:98353717-98353883
Coord A exon
chr10:98352431-98353716
Coord C2 exon
chr10:98352297-98352430
Length
1286 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TACATTTTACTGTCTGTTAGGAG
3' ss Score
6.3
Exon sequences
Seq C1 exon
GATTCTGATTTTGGGGATTGGACTTCTGCATATTCTGTCAGCAAATGTTCACAGGTTAGTCAATCAGAGTGATTACTGTTGGGAGCTCTCTCCTCATACGTACTTCCTCACACCTGGCCAACGACCACAGATGCCCCTCACAAACTTACTGATCATCAACAAAACAG
Seq A exon
GTAAAAATGTTTCTAATATGTAGTTTATGAATATCAGCACTGTTATGAACATTGCTTAGGAAAGACACAGGACAAAAAGGTGAATGTGTCTTACACCCAGTTTAAGAAACTTGACCTTAAATTGGAACAATGAAACCAGAAATATGTGATGAAGGAGACATGTATTATGTCAGCATTCATGAAAATCAAGGTTTGTATAGAAATGTTGTGAAAGTTTAATGTCACAGTGATTATAAAGAGAGACTACATAGCTGGATACAAGAGCACGTTGGTAGGCATACCTTTTAAATTTAAAAACATTTAAATTACATGATCACCGTTGCTGTCATTAGTTCAATGGAATATGTTGATAGATTCTAGGAAGTCTTATTCTAAAAGTAGCAAGGGGTTAAAAAAGTTATTTTTTAATTATCAGAGTTATTTTTAACTAGAAGAGATCATAAATACATGAGAATTATTATTATTATCAAGCCATATTTGGAAAGTCCATTAAAGAACCACAGATGACCCAGCGAGAGTTTCAGTGGGTCAGGCACCTGCTGTGCATGCAAGAGGACAGAGTTCAGATCCCCAGAGCCAACATAGGTTTCTTCATGCTGTATCACAACTGTGAGCAGAAGTAAACATGTGCAAGTTGCTTTTGGTGGTGTTTTATCACAGCAGTAGAAAAACACCCAAGGCACCATGCTCTGTTGGATGTCCCTATACTGGTGCCAGCAGTAACCGGCCTCAGTGCATTATACAGAAACAAAGTCCAGAACTGGGGAAGGTGTCAAGGCAGGAGGTGTAGATGATAGGATTTAGAAGTAGTGGGAAGTGGAAATATGACCAAGATTGTTTCTATGCACATGTGAAATTCTCAAATTACTAATGAAAATACAGGTTTAAAAAACTTGCTGGATGTGGAGACCTATGTGTCATCCCAGAGACAGTCAGTGCCTAGGGCAGCTGGCCAGAGAGACTGAGTTGGTGAGCTCTGACTCAAGGGAAAGACCCTGGTTCAATACATACAGTGAAGAGTGATCAAAGAAAATACCTGACATAGACTTTTGGCCTCCACACACGTGTGCATGCATGTAGCCTTACACATACAATAACATGCCCACATGCACATAAAGCAAAAAAGGGAACAGGAGGTATTTGTTCAAAAAAGAAATACCTGGAGAATTAAAATTCATACTATTGCAAGCTGTGACAAACAAATGGCTGAGAAGAATCATTTTGATACATAACTTTGTGGTGTTCCCTTGGGTTTATAGTGCCTTTTACATTTTACTGTCTGTTAG
Seq C2 exon
GAGAAAAGATCGATGACTTCCTACATTCGCTGGAGCAACAGAACATAGCTTTGGAAGTTGATGCCTTTGGGACTAGAAACGGCACAGAGGATAGCCAGTATAATGGCGCTATCATCGTAGCGGGCGGTGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004147:ENSRNOT00000005665:20
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(15.3=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(12.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTTGGGGATTGGACTTCTGCA
R:
CTTCTCACCGCCCGCTAC
Band lengths:
294-1580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]