RnoINT0010238 @ rn6
Intron Retention
Gene
ENSRNOG00000012892 | Abca4
Description
ATP binding cassette subfamily A member 4 [Source:RGD Symbol;Acc:1309445]
Coordinates
chr2:225730167-225730971:+
Coord C1 exon
chr2:225730167-225730306
Coord A exon
chr2:225730307-225730833
Coord C2 exon
chr2:225730834-225730971
Length
527 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTT
5' ss Score
4.83
3' ss Seq
CATCTTCCTTCTGCCTCCAGGGG
3' ss Score
11.24
Exon sequences
Seq C1 exon
CCTCACGGTGGCTGAGCATATCTTGTTCTATGCCCAGCTGAAAGGGAGGTCCTGGGAGGAGGCCCGGCTTGAGATGGAAGCCATGTTAGAAGACACGGGCCTTCACCACAAGAGAAACGAAGAAGCTCAGGACCTTTCAG
Seq A exon
GTGCTTGGTACTGGGAGGAGACGGGCCACATGGGAGCAGCCATTGGCCGCCAGTGCACCTTAGCAGAAGGTTGGGGTTACAGAAGTTCTCAACCTGTAGCTCACAGCCCTCCACCCATCAGATTCCCTGCATATCAGATATTTACGTTATGATTCATAACAAAATTACAGTTATGAAGCAGCAATGAAAATAATTTTACAGTTGGAGGGGGTCACCACAATGTGAAGAACTATCTTAAAGGGTCTCAGTATTAGAATTGAGAACCACTGGGGCTATAACGGGAGAGCTGTGACGCTAAGGACACAGCTCTCAGATGATCGGGTGTTAGGAGACAAGGCTGGTCTATGATGGGCATCGATGGAGCCGGGATGATACTATGACTTCTGACAATGTAGGCATATCTAAGGTGACGATATCAAACTGTAGCCAGATTTAAAGAGTCTCTATATGTGACCAGCTCTGGACCTTTCTTGTCCCCGTGCCAAGATGTCTGTGATACCCCGTCATCATCTTCCTTCTGCCTCCAG
Seq C2 exon
GGGGCATGCAGAGGAAGCTGTCTGTTGCCATTGCTTTTGTGGGAGATTCCAAGGTGGTGGTCCTGGATGAGCCCACCTCTGGGGTGGACCCTTACTCTAGACGCTCCATCTGGGACCTGCTCCTGAAGTATCGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012892:ENSRNOT00000017878:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(32.4=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(17.9=55.3)
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:
CCTCACGGTGGCTGAGCATAT
R:
CTGAGCGATACTTCAGGAGCA
Band lengths:
278-805
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]