RnoINT0010458 @ rn6
Intron Retention
Gene
ENSRNOG00000004147 | Abca8a
Description
ATP-binding cassette, subfamily A (ABC1), member 8a [Source:RGD Symbol;Acc:1307333]
Coordinates
chr10:98330352-98332276:-
Coord C1 exon
chr10:98332159-98332276
Coord A exon
chr10:98330444-98332158
Coord C2 exon
chr10:98330352-98330443
Length
1715 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGA
5' ss Score
5.64
3' ss Seq
TGGTATCTTCTCTTTCTCAGGCG
3' ss Score
9.01
Exon sequences
Seq C1 exon
AAGCCAGTCATCATTGCCAGCTGCCTTCGTAAAGAGTACAAGGGAAAGAAGAAATGCTTCGTTCTTAAGGGCAAGAAGAAGATAGCCACAAGGAACATCTCTCTTTGCGTTCGCAAAG
Seq A exon
GTTGGACATGGGTTCCAGCTCAGGATCCTCCTCCAAACTTTAGCGTCCCTGTCCTTCAGTCAGCATGCCTGAAAGCTATGCTATGTATTTTTTTTACACAGTAGAGTGACTGCTGACTTTCTTTCTTGAACGAAATGGTTTTTCCTTTGAATAGGGGTATGAAAGTCACAAGCATTCTTTGTCATCAAACCGTTTAAAATACAGTCTTCCTATTCAATCACTCTTGCTCTCCTAATAACCAATACTGTTTACCAGGGAACTGACTAAATTCTGCTATTCCAACCTGATATCTTGTCCACAGGGTAAGTTTGCCAACTTCTGTCTCTCTCTGTCTGACACAAGTACAACTTAGTCTTTCCTTGTCCTGTGGCTCTGTGCAAGTAGCTGAAACTCAAGAGTTTCTATCCCTTTTCAGTGTTGTCACAGCTATTCCCCCACCCCATGCTATCATATAGTTTTTCATTAATTACTACAAAACAATTGTACAAGTTAATGACATTCCCATCCATGCAGATGTGGTATACTGATCATATCCAACCATCCAATTTCTCCCTGGCCATCCACTCCAGGCCTTGTCCACCATCTATCCAGTATCAAGTAGCCCCTCCTTGGCCCTCACTCCACCTTTCGTTTGTTTGTTTGTTTCATTTCTCAGTGCCTTCACTTTCTTTCTCCGCTACTCTGCAATTTTCATTATAAATATTTTTCCATCCACTTAGCTATATTACTGCTAATACCTTATTTTGGATACTTGTGGAGAATAGGCTTCTCTCTCGGTGTGTTCATACTGGTGTATGTTGGTGCTATCTGGAATGGGAGAGATTGTTCAGTGGTTAAGACCAGTTCCTCCTGCAGAGAACCAGAATTTGGTTACCAGTACCCACGTGGTAACTTATCACCATCCGTAACTCTGGTTCTGAGGGATCTGATACCCTCTTCTGACCTCGGCTGGCATCTGGGACTCATGTGATTCATAGACAAGGCACTTATACAAATAAAATAAACAAAATAAAGTAAATTTAAAGTGAAAAGAAAAGCTACCTATTGGGTATGCTGGTTTTCTATCATGCCACTCTCATCTTTCTGTGGACTGCAAAAACATTTTCTATGTATAGAATCACATTGTTGGCTAGCAGAGATGATCCAATTGTCTACTTCTTTATCCATAGATTTTTTTTAAATTTCTTATGTAATTGCCGTGGTTTAAATTTTAGTAGTTTGTGGAAAAGGAGTGATAAAAGTAGTCACCCAAATTTTCTTCATATTAGAGCTAGGTTTTTAATTTTTTCATAAATTATGATGTTTACTATGGTCCCGTAATATGTAATAATATTTTAGTATGCTTGATTATGATCCTTTTAGAGATTAATTTTGGTTTTAATTATGTGTATTTTGTGGGGCACATGCACTTGTGAGAGAAGATGCTTCCAGATCTAGATTGAGTACCAGCTCTCCAGGAGGTGGAATTTAAGAGGTTATGAGATGCCTACTATGGGTACTAAGAACCAAACGTTGGTCCTCTACAAGAGCAGTAGACCCTCTCAGTGCTGAGCCATCTCTTTCCCTGTTCAGTTTTCTGTCTATTTTCTTTGAGTCCTTTCACATCACATGACAATTAAAATATAAATCGTATTTAAGGCCCATCACATGGCACTATCACTTAGAGAAACCTGTAAATGGTCGTTGTTGTTACTATGGTATCTTCTCTTTCTCAG
Seq C2 exon
GCGAGGTGGTCGGATTACTGGGACACAATGGAGCTGGGAAAAGTACATCCATTAAGATGATAACTGGGGAAATCAAGCCAAGTGCTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004147:ENSRNOT00000005665:30
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=0.032
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(7.1=25.0)
A:
NA
C2:
PF0000522=ABC_tran=FE(21.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCCAGTCATCATTGCCAGC
R:
GCACTTGGCTTGATTTCCCCA
Band lengths:
203-1918
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]