RnoINT0010433 @ rn6
Intron Retention
Gene
ENSRNOG00000004040 | Abca8
Description
ATP binding cassette subfamily A member 8 [Source:RGD Symbol;Acc:1307069]
Coordinates
chr10:98283456-98285572:-
Coord C1 exon
chr10:98285425-98285572
Coord A exon
chr10:98283625-98285424
Coord C2 exon
chr10:98283456-98283624
Length
1800 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
CTCATCTCTCGGGTCTGTAGATG
3' ss Score
7.24
Exon sequences
Seq C1 exon
CTCTTACGCGTGGACTATGATTTAAATTCTAACGCACCCCCTGATCCAGCTGGTAGCTCAAATCTGATTGCAGCAACCAATTTCATGCTGGCATTTGATGCGCTTTTGTATCTGGCCCTGACGATGTACTTTGAAAAAGTTCTGCCAA
Seq A exon
GTGAGTATAGATGTGATCAAAATAGACTACCATTTTAATAATTGCATCTCCCCAACCAGATTTCCGAATGTACGCATTATTCATATATTTCAAGAACCACTGTGGCGTCAACATGAAGAAGATGGGCCAACTTGTTACCATTGGCCAAATCAGTTCTTCTGTTTTCTTTGCCCTTGGTTGTTCTGACCTGAAACCTACATTTTGCATCACTGACCTTTATTTCCCTTCTATAAGTTATGGCTTGCTGCTCTGTTGATGTTCATTTGTTTATTAATTCATTGTGCCATGGATCAAGTCAGGGCTCCACATGTGCTAAGCAAATGCTATACCACCTAGCCAGCAGCCTCAGCCCTTGTCTTAGTCCTTTGTAAAAGACGCTTTACAAAGCTCATTTCTCAGTGGGTCTGCTGCTGCTGGACATTTATAGGTGCTTTTGTGTGCCTAGCTAGCTTAGCAATTCTGCATCCAAAATGGACATCAGAATCATGCAGGAAAATGTATAGAAGGAAGAAAGGCAGCTCATGCCGGAGAGATGTCGATGCAGTTTCTCAGTGAAGGGAGCCAGCTACCTGGAGTTTTAAAAATCTTCCCAGAATATCACAACACAAAAATATTATTATCATCAGGGCCGAGTTGTTCAGGCTTGTACTACAAGATTTCCACAAAGGAGGCCAGCCTGAATCACTGTGTGAGCTCAAGGCCACCTGAATCTTATTAAGATCCTATCTCAAAAGAAAAGGCCAAAGGACAGCAGAGGCTTGGTAGAGCTCAGTGGTGGAGAGCCATGCACATGCTAGAAGAGTTTTGTTAAGTACTCTCCTGCTTTCAGAGGGCTCCTGGGCTTTTTTTCCTCAATATTTTTTTCTATCTATAAAGACATTCACATGTTCAGTTTTTTCCTGCTTTAAAAACACCTTTAATTTATCAACATAGCAAAATATTTTCTTTAATCCCAAATCATCAAATTCCTTGACTTTTGCCTACCACTCTTTCACAGAGCTTAAATATAAAGACTAGAAACAACTTTGTTCACCTTTTTTTCTTTTTCAAAAGAGAGTAAATATGAATGACAGGAAGAGAAGCTAATCCTGTGAAAATGCAGAAATCCCAGCAGCCTTCAGTGCAGGAAACAGGTAGCGGCTGAAAGCGTCAAACTTCCGGATTCACAGAGAGCTGGGCACTTAGTGTGTGAATGAAGCACGGCCCACGTGAGGGCCCTGAGCTCTAAAATCCCCCACCCTTACAGCGCAGTTGCAGAATATTAGAGAACCATGCACTCCACCTCCAATGCTGGGAAAACGGAAGCGATGATAAAGCTCAAATGGGTTCATTTCTACTAAGGTGCTTGTGATGAACACATTCTCATAACAGCCGGTAAATCTCCTCCTTAGCTACAAACGACGCCATTTGTTTTCCTTAAATCTTATTACATCTTCCTTCCAAGTAGCTCACAGAGCCAGCCGTTGCTTCTTGAGGTCCTCTTCCTCTGCATAACTGGACACTCAGACTTAAAACAGAATCCAGAAGGTCTAGGGGACCTTGCCTTTTTAATCCCAAAGTTAAGACCATTTCGAGCACAGCGGTCAGATTTATGAAATTCCTCCTTTTAGAAATACTTGCAGTCGACTTCTCTTTATTGCTATGGAGAGATCTCGGTGGGAATTTTTCCTGATAAAGCTACAGAGTTGCTTCGTGTGGATTGTGCCAGACTTGGCAGCAAAGGGTGGCACAGGTGGAGGTGTGGCGGGGGAGGGGTAGGTGGTGGCTGACTCAACATTCACTCATCTCTCGGGTCTGTAG
Seq C2 exon
ATGAGTATGGACACCAGCGGTCTCCCCTGTTTTTCCTGAAACCCTCATTTTGGGTACAACCACGAAAGCCTGCTCACGTGATTCTTGAAGATGGAATAGATCCCGCTCCTTTATCAGGTGGCTCGTTTGAACCGGTGTCCCCAGAATTCCACGGGAAAGAATCCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004040:ENSRNOT00000005489:8
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=0.018
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PD(10.8=84.0)
A:
NA
C2:
NO
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:
CTCTTACGCGTGGACTATGAT
R:
CTGATGGATTCTTTCCCGTGGA
Band lengths:
317-2117
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]