RnoINT0009962 @ rn6
Intron Retention
Gene
ENSRNOG00000018126 | Abca1
Description
ATP binding cassette subfamily A member 1 [Source:RGD Symbol;Acc:631344]
Coordinates
chr5:69891190-69892400:-
Coord C1 exon
chr5:69892287-69892400
Coord A exon
chr5:69891339-69892286
Coord C2 exon
chr5:69891190-69891338
Length
948 bp
Sequences
Splice sites
5' ss Seq
CAGGTTCGC
5' ss Score
5.28
3' ss Seq
TCCATATTTGCTTCTTACAGAAT
3' ss Score
8.35
Exon sequences
Seq C1 exon
ACGGTACTTTGCCAGCAAGACGAAACAGACGGGCCTTCGGTGACAAGCAGAGCTGTCTGCACCCATTTACAGAGGACGATGCTGTGGATCCGAATGACTCTGACCTAGACCCAG
Seq A exon
GTTCGCACGGGCGGGATCTTTGTTCTGTTGTTTGAACCTGAGTTTGTCTTTTATGTGTTTCCTAGCTCTCTCTTTGATGGCCTTTGGCTAAGATCCTAACAGGTCCCAAAGAAAAGTAGAAAAGATGAGAGCCCCCTTTCCAATGTGGCATATCTGGTCAAACCTGAAGAAGCCTACCTTTATCACTTCACAGTTTTCTCAGATGGGTATGAGAAAGTGACCCGTCCATGCTCCGAACCCATTTATTTACTGTCACCTCTGTAGGGTCTCCGTTTCTTGCACACTGAAGTGCTCAAGCTTTGAATGAAAATGTATTGAATGGGTGTTTGATTTTGAAAGAATCAAAGAGGAAGTTGTGTTCTTTGACATACATATTGTCGATGTGTGTGTCCATGTGAGGTTGAGATGGACAAGGGCCGTAGGAAATGAAACAAATCCGCAGACTGTCTAAGTGCCTCAGTTAGGAGTCATTCGTTTTAGACATCTTTTGGTGAGGACAGAAAATTAATCTGGTTTTATGCGTCTGGCTTTTTTTTTTCTTACTTTATGTTTCCTCATCAGGACTTAGATGTTTTAAATTTGTTCACTTTTTACCATGCATATGAAAGATAGGAGACTAATAACCAGTGTGTGCCAGCCTACACGGCCCAATTCAGAGCTGATGACTTACTCCATGGGAACAGCTTGCTTCGGATATCTGTGAGCACCAGCCCCAAGGCATCTTCATTTCCTGTGCTCATCAGACGAGGACTGAAAGCATACACATTGAGAAATACAACTTTGAGTTAGAGCCTTTCCTTAGACCTTTCAAGAAAACCATTTGCTTCTGTGAGGTTCTGGAGGCTTCAGACCACAGCTTCCAGGATGACTGCTGGAGATAGCAGAGGAAAGAGGAGATAGCAGATACAGGAGCGATCGCAGCTGACCCTCCATATTTGCTTCTTACAG
Seq C2 exon
AATCCAGGGAGACAGACCTGCTCAGCGGGATGGATGGCAAAGGCTCCTACCAGCTAAAGGGCTGGAAACTCACCCAGCAGCAGTTTGTGGCCCTCTTGTGGAAAAGGCTGCTGATTGCCCGGCGGAGTAGAAAGGGTTTCTTTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018126:ENSRNOT00000024564:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.462 A=NA C2=0.120
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(1.1=12.0)
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:
ACGGTACTTTGCCAGCAAGAC
R:
GAAACCCTTTCTACTCCGCCG
Band lengths:
254-1202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]