RnoINT0010446 @ rn6
Intron Retention
Gene
ENSRNOG00000004147 | Abca8a
Description
ATP-binding cassette, subfamily A (ABC1), member 8a [Source:RGD Symbol;Acc:1307333]
Coordinates
chr10:98383276-98385246:-
Coord C1 exon
chr10:98385145-98385246
Coord A exon
chr10:98383481-98385144
Coord C2 exon
chr10:98383276-98383480
Length
1664 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGA
5' ss Score
5.85
3' ss Seq
TCTTTCACCTGGCTTTGTAGGAA
3' ss Score
8.76
Exon sequences
Seq C1 exon
ACCAAGATGGTGAAGAGAGAGATAAACGTGTGGCAACAAACATGGGCCTTATTGTGCAAGAATCTTCTCAGAAAAAAGAGACTGAAAAGAGACACTCTTTGG
Seq A exon
GTATGACTCCGGATCTGCCCTGCTTCCTGTGTGGGATGGTGCAGTATGTTTTCTGTGTGCAAGGGCTGGAGACATCCCTGGGAATGAAATCATTCCTCCACACAGAAGGAGGGGGCCATTCATTAGGGACAGCATAACAGAGGCCAAAATGAGAATATAAAAAATACCTTAAAACCCTGCAAAGCCATTCCAAACTATTCTGCCCTCTCAGATGAAGATAGTGGTGGATCAAAGGGACAAAGTTAATGGACACATACGCCGTGATGACAGAGCTAATGGCTTTATCTTTGAATTGATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCCTTTGCTTTGAGAGTTAAGTATGTATTTTACATAGTAGTGCTCTACCTGCATGTAAGCCTGCATGGCAGTAGAGGGCGTCAGATCCCATTACAGACGGTTGTGAGTCACCATGTGGGTGCTGGGGATTGAACTCAGGACCTCCGGAAGAGCAGTCAGCGCTTTTATCCACTGAGCCATCTCTCCAGCCCCTGGATCTTTCTCTTTTAGAATGGCATTTGGTTTCTTAAGGACACAGAGACTTTGTGAAATCAGCATAATTGTGAAGAAAAATGTTCCTATTTATGTTATCAGTGCAGCAAGGTAGCATTTGCAAACGGAATTGTGAGATTATTCAAAGGACGTATTCAGTGAACTTTTTAAAAGCCAAGTATTGGGGAAAAAAAGCAAACAAATGGTTGGTCAGGTCACTTAGAGGGTAAAACCGCTTACATCTATGCCTGAGGACATGACTCTGACTCTAAGCTCACATGACGGGAAGAGAGAGCTGACTCCCATGGGTCATCACTGACTTCTGCATGTGAACCGTGGTCCTTGTGCATACAAGTGAGCCTGCATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCCTGTGCCACATGTGTGTATATGTACAGGTACACATATACACAAACATGCACACATATGCACATTCACATTCATACATACTCATATATACACATTTTGGAAATTAGAACCCTTTAACGTGATTTGTTGTTTTCAACTCACAGTATCCTTCAGAGAGTCCTAGCAAACTCTCAAGTCAGTGTAGTATTCTATGGTCCTGGCTTCTTGTTGCATTTTCTATCCTGCAGTTAAAAATATGACCAAAATAGTAATTATTATTAAACTATCAACATCAACAATAATAATTATTAACTTGTCTTAGAACTATTTCCATCCTCTGATTCTTGCAACAAACTCGAACTGAGGAGTGCTGGAGGGAGGCTGTGCCCTGTCACAGCCTACTACTGCACTTTTAAAAAACAATTCATCTCCTCATCCTGGAGCACTATTTCCAAGAGGAGGCCAGGAGTATAGGAGCCATATCTGTACCCTTTGGAGGCTGAGGCATGAGGATTCCAATTCAAAGTCAGCTTAGGGTAGATAGCAAGATAATATTTTTAAAAAGTCTTGAGAATTATAGGCAATGCTTAATTTTTGTAGAAGGAATGTTCTCTCTCCAAATATGTCCTAGAATACAGAGAAATTTGAAAATTCGTCAACAAATGTCATAGCTATATGGTAAAATGTTTGACTCATTAGAAATTACAGTTATCTTCGTTTCTTTCACCTGGCTTTGTAG
Seq C2 exon
GAACTCCTGTACACAGCATTTATACTACTTTGTTTATCTTTATTTTTTGAATTGCATGACGTTTATGAGTTTTCGTCACTGTCTGATGTGGACTTGGGACGCGTTGATTCATTTAATGACTCCACCTTTGCGATTGCATACACACCTGTCACCCCAACAACTCAGGAGATAATGAACCGTGTCTCTTTGGTCTCTTACATGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004147:ENSRNOT00000005665:2
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=PU(1.0=11.8)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(17.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAGATGGTGAAGAGAGAGATAA
R:
CATGTAAGAGACCAAAGAGACACGG
Band lengths:
302-1966
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]