RnoINT0010296 @ rn6
Intron Retention
Gene
ENSRNOG00000004378 | Abca5
Description
ATP binding cassette subfamily A member 5 [Source:RGD Symbol;Acc:628661]
Coordinates
chr10:98633527-98635035:-
Coord C1 exon
chr10:98634831-98635035
Coord A exon
chr10:98633689-98634830
Coord C2 exon
chr10:98633527-98633688
Length
1142 bp
Sequences
Splice sites
5' ss Seq
ACGGTATGG
5' ss Score
8.47
3' ss Seq
ACACCGTCTTCATGTTACAGTTC
3' ss Score
8.47
Exon sequences
Seq C1 exon
GAAATTCTTTTTCCTCTATTTTTCTTATTTTGGCTGATATTAATTAGCATGATGCATCCAAATAAGAAATATGAAGAAGTATCTGATATAGAACTCAGCCCTATGGACAAATCCATCCTTTCCAACCTTATCCTGGGGTACACTCCAGTGACTAATACTACAAGCAGCGTCATGCAGAGAGTTTCTACCGATCATCTTCCCGACG
Seq A exon
GTATGGCAGTCTCCCAGTGTATTTACCTTACTTTATGCCTGTGTTGTATGTGTTTGTGTGAGTGTACATTCACATGTGTGCAGGGGCGCAGGGAGGCCAGAATAGCCCTTAGGATTTCTGGAGCTGGAATCACTGCAGTCCAGCGTGGTCGGCTGGGCTCACGTATGAGGGGAGAGTGAGATCACTCATCTGAACATACACGGATAATGAACAGTTAGAGGCCTGTCCCCCGACCACAAAATCTGGAGCTTTCGTAGTGAGGTCAACTTAATGCATGTAAAACTGCACAAGGACATATTTTTAAAAAGAGTCTGAATTTACGTGATAGAACGGCTTCACAGCTTTCTGCATTTGCCTTCTGAAGAGGAATAAGCAGTATTAGGTATGAGTAATGGTTTTTATTCAGTTTTATTGCAGAGCTTGCTGACCTACATCTTGGGGTGCTCAGCTGTGGGTCATAGGTCACAGATAGTTGAGGTAGAGGACACCTATGAAGACGGTTCAACCCACATTTACTTTTTTTTTTTTTTTTTTTTTTGGGGAACTTGGTTGAGTGATTCTTGAACATGAACCTTGTAGATAGTGTAAGCCCGTCAAAAGCTGGACATGCCAAGAAGAATTTTCTCCATAGAAACAAATATTTAAAAATAAAACTTTAATTGTTAGGAGTTATTTTACTTTGAAGCAGGTAATTGAATTATATTATTTTTATAATTTCATTTATGTCTGAAATCTTATAGACTTTAAATGTATACCTAGCATGTTCAAGGACAGAGGTTTATTTCAGTACCAAAACCTCCTAAAAATTAAAGGTATATGATATCAAACTATGCAGCGTTAGAATATAGAATTAGAATATGTTACAATGTATTGATATTTCAAATAGCATATTTTGATGAAATATCCTCCATATTGTTTTATATTTTACTGTACTATAGACACAGATCATATATTATCCAATCATGGTTTATGTAATCAGGTCACACTTTAGTGTCTGTAAAGTAATGCTGCTTATTGCTGTCTGTCGTTATTCCCTTTGTGCTTATCATTCTCTATGAAGTTAGTGAGACGAGGCAGTGGCGAGGCATCCGCTAACCCACTGTGCTGTAGCGTGAGTTCATCACACCGTCTTCATGTTACAG
Seq C2 exon
TTCTAGTTACTGAAGAATACGCCAGTGAGAAGGAGCTGCTGGCATCCAGTTTGTCTAAGCCCAGCAACTTCGTGGGTGTGGTTTTCAAAGACGTCATGTCCTATGAACTGCGGTTTTTTCCTGATATGGTTCCAGTGTCTTCTGTTTATATGGATTCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004378:ENSRNOT00000005848:3
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=FE(17.6=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(14.0=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:
TCCTCTATTTTTCTTATTTTGGCTGA
R:
TAAACAGAAGACACTGGAACCA
Band lengths:
342-1484
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]