RnoINT0010471 @ rn6
Intron Retention
Gene
ENSRNOG00000004147 | Abca8a
Description
ATP-binding cassette, subfamily A (ABC1), member 8a [Source:RGD Symbol;Acc:1307333]
Coordinates
chr10:98373520-98374831:-
Coord C1 exon
chr10:98374646-98374831
Coord A exon
chr10:98373662-98374645
Coord C2 exon
chr10:98373520-98373661
Length
984 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GGCTATTTTTTAATTTACAGCTC
3' ss Score
8.29
Exon sequences
Seq C1 exon
ATCTCTTTGTCTTTCTTAATGAGTGTCTTACTAAAGAAGTCTTTCCTCACCGACTTGGTGGTGTTCTTCCTCACTGTTTCCTGCGGAAGTCTTGGATTCGCAGCATTATACAGATACCTTCCTGTGTCCTTGGAGTGGCTTCTAAGTTTGCTAAGCCCTTTCGCTTTTATGCTTGGAATGACCCAG
Seq A exon
GTGAGTGGGAAGCTAGCGAGCTTACCAATTATATTCCTGAAAGATGTTTCTCCCCGGAACTGAAATTGTCTTAGAGTTATTTCTACAGGTGGCCTCTTAAACACTATGGCTCAATGGAATCTACTTGTGAGATTTCAAAGTTGGAGAAGACACTTTCTCCCAGAAAATAAGTTCTGTATGTAAAAGAAGGTGAACAGATTCACAATTCAGTGTATATTCAGTATCAGTATATATATATATATATATACATTTAGTATATATACTGAATATATATTTACTATGTTTTGTCACACTCCAAAGTTTGTTATTTAACTTTAAATTTTGACTTTAAACTGATGCATCCCAGTTAACCACCTTATTTAATTTTGAAAGGATAATGTGATTTAATTCTGAAGCAGTAACATAAAGCAAAATAAAATGAACATGAATATTTTGGATGCTCAACCATGGTCTAAGAAATCCCTTTTTGATCCACAAGTGTTTTCCCTTCCTCTACTCTATTGACTCCTTAACCTGATCAGACAGACTCTTGTACTCAGCTATGGAATAAGTCCAACTATTTAATCTCCATTATGATGTGATGATAAGAATTTCTATTATATATAAATATACATATATATAAATATGTGTACTCACACACACACATATGGTTATGGATGTCAAGGTCTTGAACATATGCATGTTTACCTGTGTGCAGGCACCTACAGAGGCCAACTACCACACCTTCTCTAAATTCCTTTTCCTTCTAATGCGTGTCTCGCTGAGAACACACATTCACTCTGCTAAATGTGATTACGTAAGTGCGTTGCCGTTCTAAGCATTTCTGATTTCCCATCCAAATCTGTGATCTGCGCAGCTGAGCAGTTAGACTTTGCCTTTCAGGGATGTAGCAGAGTGTAATAGTTTCCATCCATGAAACAGCTAAGCTCTTTCTAAAAGGTGACCATTTGCCTTTAACTCACTGGGCTATTTTTTAATTTACAG
Seq C2 exon
CTCTTGCGCTTGGACTATGATCTGGAGTCAAGCGGGCACCCCACAGGCAACCCCAATGTAGTCATTGCCACCGTTTTCTTGTTGTTCTTTGATGGTGTCTTCTACCTGATGTTGACATTCTACTTTGAGAAGGTTTTACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004147:ENSRNOT00000005665:8
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(15.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(10.3=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCTTTGTCTTTCTTAATGAGTGTC
R:
CCGGTAAAACCTTCTCAAAGTAGA
Band lengths:
327-1311
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]