HsaINT0000653 @ hg38
Intron Retention
Gene
ENSG00000167972 | ABCA3
Description
ATP binding cassette subfamily A member 3 [Source:HGNC Symbol;Acc:HGNC:33]
Coordinates
chr16:2326010-2326492:-
Coord C1 exon
chr16:2326413-2326492
Coord A exon
chr16:2326275-2326412
Coord C2 exon
chr16:2326010-2326274
Length
138 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
3' ss Seq
CCCTATTGTATCTCTTCCAGAAG
3' ss Score
9.16
Exon sequences
Seq C1 exon
CACTGGGCGTCCCTTTCAGCAAGACGATGGCTGTGCTCAGGCAGCTGGCGCTCCTCCTCTGGAAGAACTACACCCTGCAG
Seq A exon
GTGCGTCCAGACTCTGGAGGGAGGTCAGCTGCGTGCCTAGCCCAGAGGCTCCTGGGGATGCCCTTGAGGGAAGGGCTGTCTGCATGCCCCTGCTTCTGCCTTGCAGCCCATCACCGTGCCCTATTGTATCTCTTCCAG
Seq C2 exon
AAGCGGAAGGTCCTGGTGACGGTCCTGGAACTCTTCCTGCCATTGCTGTTTTCTGGGATCCTCATCTGGCTCCGCTTGAAGATTCAGTCGGAAAATGTGCCCAACGCCACCATCTACCCGGGCCAGTCCATCCAGGAGCTGCCTCTGTTCTTCACCTTCCCTCCGCCAGGAGACACCTGGGAGCTTGCCTACATCCCTTCTCACAGTGACGCTGCCAAGACCGTCACTGAGACAGTGCGCAGGGCACTTGTGATCAACATGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167972:ENST00000301732:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(19.2=96.6)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CGCTCCTCCTCTGGAAGAACT
R:
GCGTCACTGTGAGAAGGGATG
Band lengths:
244-382
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development