RnoINT0010228 @ rn6
Intron Retention
Gene
ENSRNOG00000012892 | Abca4
Description
ATP binding cassette subfamily A member 4 [Source:RGD Symbol;Acc:1309445]
Coordinates
chr2:225707364-225708274:+
Coord C1 exon
chr2:225707364-225707569
Coord A exon
chr2:225707570-225708097
Coord C2 exon
chr2:225708098-225708274
Length
528 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
TTCATCCTGTGCCTTCTTAGGTA
3' ss Score
10.4
Exon sequences
Seq C1 exon
TGTCTGGTCCTGGATAAGTTTGAAAGTTACGATGATGAAGTTCAGCTCACCCAGCGAGCCCTGTCTCTCCTGGAGGAGAACAGGTTCTGGGCTGGAGTGGTATTCCCTGACATGTATCCGTGGACCAGCTCCCTACCTCCCCATGTGAAGTACAAGATTCGGATGGACATTGATGTGGTGGAGAAGACCAATAAGATCAAAGACAG
Seq A exon
GTGATGGTTCGGTCTTGAAGGGTTTCTCCAAAATCCACGGTGAGCTGTATTTGGTAGAGAGTAGAGGATTATGGGTGAATGCAGCCATGTGTCAGTGAAGGTAAGCTAACTGGAAGAAAGTATGATTTGTGTAGATCCATGTAGATGGGAGCAATCACCTTGTAGGTCATGGCCATTGGAGTTAGCACTGTGACCCAAAGTAAGGCTGGATAGTCTGGGAACATTTAGGACACCATTTCTCAACCTGTGGCTTCATGACACTTCACAGGGCTGGCCCAAGACCATCAGAAAACACAGATATTGATTAATAACAGTAACAAGATTTCAGTCATGAAGTAGTAACAAAAATAACTATGCTTGGGGTCACCACAACACAAGGAACTGTATTAAATGGTTGTCACATTAGGAAGGTTGAGAACCACTGTTGGAGGAGAATGTGTCAAGGGAGTGAGTTCTAGAGCAAGTTGGGCTTGTAAAGTGAGTGAGTTACCCACTCCCACTTACATTCTTCATCCTGTGCCTTCTTAG
Seq C2 exon
GTACTGGGATTCTGGTCCCAGGGCAGATCCTGTCGAAGATTTCCGGTACATCTGGGGAGGCTTTGCCTATCTACAGGACATGGTTGAGCAAGGAATCGTGAGGAGTCAGACCCCGGCAGAGCCTCCAATTGGAGTCTATCTCCAGCAGATGCCTTACCCCTGCTTTGTGGATGACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012892:ENSRNOT00000017878:12
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=PU(18.4=88.4)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(17.8=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:
TGATGAAGTTCAGCTCACCCA
R:
GAGTCATCCACAAAGCAGGGG
Band lengths:
351-879
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]