GgaINT0144870 @ galGal3
Intron Retention
Gene
ENSGALG00000002453 | ABCA7
Description
NA
Coordinates
chr28:2379189-2379531:-
Coord C1 exon
chr28:2379396-2379531
Coord A exon
chr28:2379319-2379395
Coord C2 exon
chr28:2379189-2379318
Length
77 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCAG
5' ss Score
2.03
3' ss Seq
CCTTTCTCCTCCTTTTATAGGAG
3' ss Score
11.66
Exon sequences
Seq C1 exon
AAGCTCAACAACATCAACCGCATCCTGAAGAAGGTCTTCCTCATCTTCCCCCACTTCTGCCTGGGCCGAGGCTTAATTGACATGGTGAAGAACCAGGCGATGGCCGATGCCTTCGAGAGGTTCGGTGAGTGCAGAG
Seq A exon
GTGCAGGGCTGCTCCCCTGCCCAACCCCCCTCCCCTGGCGCCCCCCATCCTGCAGCTCCTTTCTCCTCCTTTTATAG
Seq C2 exon
GAGACAAGCGCTTCGTGTCCCCGCTGTCCTGGGACTTAGCAGGGAAGAACATGTTTGCCATGGCCATCGAGGGCACCATCTTCTTCCTCTTCACCGTACTGCTGCAGTACCGCTTCTTCCTGCGGCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002453:ENSGALT00000003869:18
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(13.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(10.0=75.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTCAACAACATCAACCGCA
R:
TCTTCCCTGCTAAGTCCCAGG
Band lengths:
183-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]