RnoINT0010152 @ rn6
Intron Retention
Gene
ENSRNOG00000039656 | Abca17
Description
ATP-binding cassette, subfamily A (ABC1), member 17 [Source:RGD Symbol;Acc:1560494]
Coordinates
chr10:13666704-13668320:-
Coord C1 exon
chr10:13668170-13668320
Coord A exon
chr10:13666803-13668169
Coord C2 exon
chr10:13666704-13666802
Length
1367 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
AACCTTTTCTCCCCGTCCAGGTT
3' ss Score
9.09
Exon sequences
Seq C1 exon
GTGCAGGGTATTACATGACTATAATAAAAACACCTCTCTGCGACACTGAGAAGCTCGCTAAAGTTATTTACCACCACATTCCGAATGCAATTTTGGAGTCCCGAATTGGAGAAGAAATGATCTTCACACTTCCTAAGAAGGCCATGCCCAG
Seq A exon
GTATGACCTGGGTCATTAACAATCCTCACTGTTCTCCACCCACCACCTGGGCTTCTCTTGAAGCCTCTCTCGCCTTCACCTCACTGTCCTTGCCCCCAAAACACGACACATGTCCTAGAATCTAGAAGGTTTTTTCAATAGTGCCTTTTGGATCTCTTGTACATTCCTGGATTACTAAATTACTCAACTCAAAAATTCGGACTTAAATTAGTAACTATTTTAGTGTTTCTCGTGGGTTCCCCCCCCCGCCCCCCGTCCTGGAAATTCAGCCCAAGGCCTTACACGTAAAAAGCAGGGCCTCCGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAAAAGAAAAGAAAAGAAAAAAAAAAAAAAAAGCAGGGCCTCTAACTCTTGCCTACCCCTTCCCCCAGAAGATTCCCTATGTTGGCTGCACTGAGCTGGATAGTTCTCTTGCTCCACATTAATTTTATTCTCCTGGGCTAGAACGATCTAGAATGTCCAAGATGGCTCATTCTCACACCTGGGAAAATGGTGCTGGCTAACGACTGGGCGCTTACAAGAGCTGCTAACTGTGGCATCCAGTGCTCCTCTAGGTGGACTCTCAGATGATTTTGGCTTCTCACAGTATGGCAGACAGAATCCAAAAAAAAGGATTGAACTGAACAAAAGGAGTGGTGGAGAGTGTGCTGGCTGGTTCTGTGTGTCAACTTGACACAAGCCAGAGTTATCACAGAGAAAGGAGCCTTCCTTGAGGAAAAGCCTCCATGAGACCCAGCTGTAAGGCATTTTCTCAATTAGTGATCAAGGATAGGAGAGCCCATTGTGGGTGGTGCCATCCCTAGGCTGGTAGTCCTGGGTTCTATAAGAGAGCAAGCTGAGCAAGCCAGGGGAAGCAAGACAGTAAGCAGCATTTCTCCCTAGCTTCTACATCCGATCCTGCCTCCAGGTTCCCACCCCATTTGAGTTCCAGTCCTGACTTCCTCTGGTGATAACAGCGATGTGGAAGTGTAACTGAATTAACCCTTTCCTCTTCAACTTGCTTCTTGGTCATGATGTTTTGCGCAGGAATAGAAAGTCTGACTAAAACAGAGAGAAAATCTAGTTACTTCTTTTTATTGCCCGGGCTGAGAAATAGCAAATTTTCACCTCTGTACTAGATACAGTTTACATTTCTCCCCATAGGAACGTTCCAAAATAAACGCTATTACAAGGCCATCTGAACAGATATCCTGACAGCAAATTCCATGTCTTCTCTGCTCTAGAAAGCTAAGGGTGGTAAAGGATTCACCTCCATCTTTGAGAAAGAAAACCTTTTCTCCCCGTCCAG
Seq C2 exon
GTTCGAAGCTCTATTCGCTGACCTGGAACAGAGACAGACAGAGCTGGGAATCTCTACTTTTGGGGCCTCCGTCACCACTATGGAGGAAGTGTTCATACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000039656:ENSRNOT00000060818:15
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATAATAAAAACACCTCTCTGCGACAC
R:
CGTATGAACACTTCCTCCATAGTGG
Band lengths:
230-1597
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]