RnoINT0010380 @ rn6
Intron Retention
Gene
ENSRNOG00000012939 | Abca7
Description
ATP binding cassette subfamily A member 7 [Source:RGD Symbol;Acc:1303134]
Coordinates
chr7:12745989-12746546:-
Coord C1 exon
chr7:12746423-12746546
Coord A exon
chr7:12746119-12746422
Coord C2 exon
chr7:12745989-12746118
Length
304 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGA
5' ss Score
6.95
3' ss Seq
AGTCCTTTCTGTTCCCACAGGAG
3' ss Score
10.48
Exon sequences
Seq C1 exon
AACCTTCAAGAAGTGAGCCGGATCCTGAAGCAAGTGTTTCTTATCTTCCCCCACTTCTGCCTTGGCCGAGGGCTCATTGACATGGTGCGGAACCAGGCCATGGCAGATGCCTTTGAGCGCTTAG
Seq A exon
GTGAGAATGTCTGTCAGGTAGGAACTGTGAATAGCATAACTGAAAGTGCCACCTCCAAATTCAGTTATATGGGATGGAGGGAGATACATTGCCTTTAAGTGAACAATTTTAGGTGGCACAAAAATTGTGTCAAATGTAACTAAAGGGTCATATCATGAAAGGTCTATGACTATACATAAAGGAGCATGTGAAATCTTATAATCTAAGTCAGTTCCACCCTACCAGTACAAGTCATCTTAGTCACTTTTTTGAGTCTAGGGTGATCTGGACAGGGGGCAAGACCCAGTCCTTTCTGTTCCCACAG
Seq C2 exon
GAGACAAGCAATTCCAGTCGCCCCTACGCTGGGACATCATTGGCAAGAACCTCCTGGCCATGGTGGCCCAGGGGCCCCTGTTCCTCCTAATCACACTCCTGCTCCAACATCGCAACCGCCTCCTGCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012939:ENSRNOT00000064886:37
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(12.5=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(10.1=75.0)
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:
AACCTTCAAGAAGTGAGCCGG
R:
TGTGGCAGGAGGCGGTTG
Band lengths:
254-558
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]