RnoINT0010174 @ rn6
Intron Retention
Gene
ENSRNOG00000039656 | Abca17
Description
ATP-binding cassette, subfamily A (ABC1), member 17 [Source:RGD Symbol;Acc:1560494]
Coordinates
chr10:13683642-13684881:-
Coord C1 exon
chr10:13684709-13684881
Coord A exon
chr10:13683786-13684708
Coord C2 exon
chr10:13683642-13683785
Length
923 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
AAGGTTAACTTCTCGTGCAGTGT
3' ss Score
3.96
Exon sequences
Seq C1 exon
GCACAGGCATCCAATGGAGGAACATGGGCAGCGTCTGGGGCGACTTCAGCTTCACTCAGGTGCTGGTGATGCTCTTGCTGGACTCCTTCTTGTACTGCCTGGTAGCCTTTTTGGTGGAGTCTCTCTTCCCAAGAAAGATCGGAATGCCTAAGTCTTGGTACATCTTTGCCAAG
Seq A exon
GTAAGTTCTGAGTCTGCTACTTTACAGACAGATGTTAAATTCTTTCTATCTGTCATCTTCGTTCCTTCACCTCGCACTGGTGTACTAATTAAGATCTCAGACACCAGTCAGTCTCTACCCTGGATTCACCTCATAACTATCAGTCACCCTGCGGTTGGCAGTGGAGCGTAATTTACCAGTCTCGGTTTCTCTGAACTTACCCCCCCCCACCCCCAGTTGACGCACTGGACTCGAGGATGAGACAGGCAGGGCCATCCCATCCAGGGTATGTCTGTTGAATACCAGGCCCTGCTTTATCCCACAGAACTCACCCGCTTGCTAACATCAGAACCCGACTTGCCAGAGTTCTCACACCCCCTTTCTCCACTGAGCTGCATTAGCAGAGGCCCTCTGAGGCCTCTGTGATCACCCAGTGTGTCAGCAGTAGGGCCACGGCTTCTCTGGACAATCCCAGAAATCCAGACTACGTTTTTCTTACAAACATGAGCTCCTTGTGCTTCACTCAGCCTCCACAGTGGCCTGTGGTGGCTCACCTATGGGCACAGTGAGGACCTGAGGCGTCTGCTCTGTCTTCTTCCTTGGGGTATGGAGAAGCAGACAAATATAACTCCAGCATCCCCATCCAGGTCTCTCCCCGCAAGAACCTGACTGCTGGTAAGGCAGCTGTCCAAGGGCAGTCAAGAGCGGGGAGGGAACACGGCTGTTTTCCTTAGATCCTCCCTGAGTGCCCGGGATTATAGGCTGAAAGGCAGTGACCCAGAGCGAATCCATTAGCAAGCTGGCTAACTTCTCCAGGTGCCATGACGTGTTTGATTCAGCAAGTAAAACCGCCTGTGGGGGCAGGGGTCTAATCCGCCAACATGCGTCTCCCACAAGAGAAAGACCACATAAGCAGTGAGTATGAAGGTTAACTTCTCGTGCAG
Seq C2 exon
TGTCCCCTCTGGCGCAAGAAGTCCTTTCCAGTAATACCGCCACTGTTGGTTATTGGGGATCCTGAGAAAACTTCTAAAGGGGACTTCCTGCAGGACGAGCCAGCAGGTCACATAAACGCCATCGAGATCCAGCATCTGTATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000039656:ENSRNOT00000060818:9
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=PD(8.3=63.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACAGGCATCCAATGGAGGAA
R:
CAGATGCTGGATCTCGATGGC
Band lengths:
310-1233
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]