RnoINT0010279 @ rn6
Intron Retention
Gene
ENSRNOG00000004378 | Abca5
Description
ATP binding cassette subfamily A member 5 [Source:RGD Symbol;Acc:628661]
Coordinates
chr10:98611083-98612316:-
Coord C1 exon
chr10:98612197-98612316
Coord A exon
chr10:98611222-98612196
Coord C2 exon
chr10:98611083-98611221
Length
975 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TTTATCCCCGGCTCGCCCAGATC
3' ss Score
5.48
Exon sequences
Seq C1 exon
GTACAGAAAGTTTTACTGGATTTGGACATGCAAGCCATCAAAGATAATCAAGCGAAAAAACTAAGTGGTGGCCAAAAGAGAAAGCTGTCTTTAGGAATTGCAGTTCTTGGGAATCCAAAG
Seq A exon
GTAAATTCAGTGTTAATTTCAGTGATGAGATCACTTTAAATAATATTCGATTAGAGATGTGGCTTAGTGGTTAAGAGTACGGGCTGCTCTTCCAAGGGGACCTGTGTTCAATTCCCAGAACCAGCATAGCAGCTTAAAGCTGTTTCTAAGTCCAGTCCCAGCAGGACTGGAGTCCACCAGGGATGCATGCAGCGCATGGACACATATACATGCACAGTGCTCATGTGCATAGAAATAAGAAATTTAAAAAGTTAGACCGAGACAAAATAATGGTTAGTTGAGTTATTCGCTGTCTGGTGCAGGGACTCCACTGTGTCTCTTTTATGCTGTTCTCTGGTTGTAGACCCAGAAGCAGCCTCACCTTCCACACACTGAAAAGCTCTGTGTGCTTGCAGGGAGAGCCCATGCAGACCACTGCCTTGCTGTGCTCCTCCCTTCTACTGCAGCATGGGGTCAGGGTGGGGGCTGGCTGTGTGTTCATTGGAGTGCCTGCCGGCACCCTGTCTGCTTTCTAAATACAAACAGCTTGAAGCCAGCTGAGGCGGCAGTGCCTCTAATGCAGCACTCAGGAAGCTGTCGGGAGGGTCATGAACTCAAGGCCGTCTAGGCTGTATAGTAAGACTCTTATTTTAATAAAAAGTGCCCTCAAAAAGTATCGGGGAAAAGTTCTTCCCCTAGCCAAGAACCCATCGCGTGCAATGATAGAGAACGTCTGTCTCTGCAAGTCAGTCGCTCCACTTGCAGGTCTAATTATGTTTAGAACAGATTTAGTATTTTGTCATTTTGTTGGTCTGATTGTTATACCAGTGTCTTCTATATAGTAACCAAGGAAAAGATTCACAATTTTAAACATTTATACAAACTTTAAGAGAGATTTTTGAGTGAAAATATTAACTTGAAATAGAGAAAATTTCCAGTGTGCACATACATTTCAGTATTTTGATTTCCTTGCCTTTTTATCCCCGGCTCGCCCAG
Seq C2 exon
ATCCTCCTGCTAGATGAGCCGACAGCAGGAATGGACCCCTGCTCTCGCCACATTGTTTGGAATCTTCTCAAGTACAGGAAGGCTAACCGAGTGACAGTCTTCAGCACTCACTTCATGGATGAGGCCGACATTCTTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004378:ENSRNOT00000005848:14
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=FE(26.5=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(5.4=17.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGAAAGTTTTACTGGATTTGGACA
R:
CAAGAATGTCGGCCTCATCCA
Band lengths:
254-1229
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]