RnoINT0009981 @ rn6
Intron Retention
Gene
ENSRNOG00000018126 | Abca1
Description
ATP binding cassette subfamily A member 1 [Source:RGD Symbol;Acc:631344]
Coordinates
chr5:69867776-69868928:-
Coord C1 exon
chr5:69868866-69868928
Coord A exon
chr5:69867883-69868865
Coord C2 exon
chr5:69867776-69867882
Length
983 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
CACCTAGTCTTGCTTTTCAGTGC
3' ss Score
6.94
Exon sequences
Seq C1 exon
ATCTACAGAAGGAAGCGGAAGCCTGCAGTGGACAGAATCTGCGTTGGCATCCCTCCTGGAGAG
Seq A exon
GTAAATGCACAGCGCCCTACTGTGTTTGTCTCTATGTTAATTCAGACTGTATCTGCCAAATCAGACAACAATGTCTGTAACTATGGAAAATGGCTTTTCAAGGCTTCTTTATTTGTGTCTGTGAGAAGCAGTCAGTCATGGAGAGCATGAGAACCTCTTGTGTCAGAACAGAACAGGCTTGCACACTCTCAGGCAGTGTAAGAAAACATGCACATCTAGATCGTGCTTTGGGAGATCCATTGAGGGATGGAATTCAAGTAGGGTAAAAAGGACTTTCTCCTTTCGCACAGTTTTTGGACTTCTTTCATGTTCTTTTTTGTTCTTTTTTTTTTTTCAGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCTCCAACCCCCTTCTTTCATGTTCTTAGAGTGGGTGGTCGGTGTGAGGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCCCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGTAAGCGCTCTACCACTGAGCTAAATCCCCAGCCCCAGGTGTGAGTTTTTAACGGCTCTTTACAGATTGACCTTGGTCTCAACTTGATGACTCAGTATTTATAAAAATGCCCACATACAACATGGCCCATACGTAAGCTCTCTCTCCTCCTCCTCTCCTTCCTCCTCCTTCCCTCACTCTCTCATGCACACATACACACAGGCACACATACACACATGCACACACACACACATACGGTACACGCGCGCGCGCACACACACACACACACACACACACACACACACAGACTCATGATATCTGAATATTGAACTCATTGATACTTAAGAGTGATGCTCTGGGATCAATGGAGAAGCCAATCCAAGCCCAGGGGGCTGTTTTATCAGGCAATTCAGACCGAGATTTAGGAGTTTGCTCCTGCAGCTCACCTAGTCTTGCTTTTCAG
Seq C2 exon
TGCTTTGGACTCCTGGGAGTTAATGGAGCTGGGAAGACATCAACATTCAAGATGCTGACTGGAGATACCGCTGTGACCAGAGGGGATGCTCTTCTTAACAAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018126:ENSRNOT00000024564:44
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:
PF0000522=ABC_tran=PU(7.6=52.4)
A:
NA
C2:
PF0000522=ABC_tran=FE(24.1=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]