RnoINT0010336 @ rn6
Intron Retention
Gene
ENSRNOG00000046890 | Abca6
Description
ATP binding cassette subfamily A member 6 [Source:RGD Symbol;Acc:1308998]
Coordinates
chr10:98485132-98485843:-
Coord C1 exon
chr10:98485752-98485843
Coord A exon
chr10:98485314-98485751
Coord C2 exon
chr10:98485132-98485313
Length
438 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGTA
5' ss Score
4.45
3' ss Seq
TCCTTAACTTGCTCTCGTAGGTG
3' ss Score
9.71
Exon sequences
Seq C1 exon
GTGAAATTTTGGGATTGTTAGGACCCGAGGGCGCTGGTAAAAGTTCCTCTCTCAGGATGATAGCTGGCATCATGAAGCCGACAGCTGGAGAG
Seq A exon
GTAGTAAAAAACCAAGATTGTTTCCACTTCCACAAAATATGATTGCGATCATGATGCACGTAGGTTACATATTTGTAGGACTGTCATTTCGCTGCTGCTCTGGATCCTCTTGTGGCTTTTGATGGGATTCAAAAGTTTGTGACAGGAATTGGAATGTTACCAGGAGCTAAGTACCTTTATCCACTACAGCTTCCTAGCTAACACCCGAATCTTCTCGCCCCATTTACATTAGCTACCGCCTGAAGGTTCAGTCTTTCCCACCCCATTTACACCCAAGATTGTGCTTGCACTTTAGTGGATTGCATTTTACCTTCTGTGATGTGTTCTAGCAGTTTGGGTGTTTGCTGGCTAGGTGGCAGTTTCCAGATTGTGCGAAGCCTGTGCAATCAGAAAGGGCTTCCTGTATCTTTGGTAAAACTCCTTAACTTGCTCTCGTAG
Seq C2 exon
GTGGAACTGAAAGAGTTAAGCTCAGCTGTGGCTCACCAGGGCGAGGGCCATGGTGCAGCCAAGCTCGGATACTGCCCTCAGGAGAACGTACTGTGGCCCATCCTGACCGTGAAGGAACACCTGGAGGTGTACGCCGCTGTGAAGGGGCTGAGGAAGAAGGATGCTGTCATTGCCATTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046890:ENSRNOT00000073149:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(20.3=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(40.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAATTTTGGGATTGTTAGGACCCG
R:
TGAAATGGCAATGACAGCATCCT
Band lengths:
270-708
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]