HsaINT0000698 @ hg19
Intron Retention
Gene
ENSG00000198691 | ABCA4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:HGNC Symbol;Acc:34]
Coordinates
chr1:94466558-94467548:-
Coord C1 exon
chr1:94467414-94467548
Coord A exon
chr1:94466662-94467413
Coord C2 exon
chr1:94466558-94466661
Length
752 bp
Sequences
Splice sites
5' ss Seq
CTGGTAACT
5' ss Score
5.45
3' ss Seq
ACCTTCTCTCCACCCCCCAGGAT
3' ss Score
10.54
Exon sequences
Seq C1 exon
GTTGCAAACTGGAGTATTAAGAGCCTGGGCCTGACTGTCTACGCCGACTGCCTGGCTGGCACGTACAGTGGGGGCAACAAGCGGAAACTCTCCACAGCCATCGCACTCATTGGCTGCCCACCGCTGGTGCTGCTG
Seq A exon
GTAACTGCGGGCTTGGGCCGCACCAAGGGCTTAAACCAAGTGCTGGGTCTCTTGGGTTGGGGAAATAGGTTCTGGGTCGGCAGATTTAGAAACTGCAGCAGTTTGGCTTTAGTCTGGACTGTTTCCTGTGTTGCTCATTTTGAGCGATCAGCCCAGTGTTTGGTTCACACAGCTCCGGAGAAAAACAAGTCACGGCACAGCCTTGACTTGGGACTGCGCACATCCTGCGTTCCCAGGATGTCTCCTGTGGGGCCATCGGCTCACAGCCGGGAAGTTCAGCCCACTCTGCGGCCTGTCGGTGTCTGGTCCCCATACAGGAGCACTGAGCTGGGTCAAAGGCTCCTGAGCTGAGCCAGGCCAGGCCTGAGGCCATGCCCACGCAGCCCAAGGATCATGAGGGCACAGGACATAGCGGGAACCAAGGAAGTGACCTGAGTGACCTCCCTGCCTTCTGACAAATGTATTTGCAGGATTTTCTTTTTTTGAGGAGAATTCTGTCATTGCCTTAATCCACTTTAATCCCCTCGTGGGCTGAAATGGGCCCAGGATGGACGCCACGCTTCTTTACTCTTGGATCCACCTCCTGCCTTCCCTACCCTACACCAGGGTACCCCTGTCTTGCTCAAGTGAGGGGAGTGACTGTGTGCGCCTTCTGTCAGCTCATCCTCCACAGGGGAGCCAGCCCAGGGGGAAGCAGTAATCAGAAGGGCCAGCTCCCAGCCTGTGCCCCCAACCTTCTCTCCACCCCCCAG
Seq C2 exon
GATGAGCCCACCACAGGGATGGACCCCCAGGCACGCCGCATGCTGTGGAACGTCATCGTGAGCATCATCAGAGAAGGGAGGGCTGTGGTCCTCACATCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198691-ABCA4:NM_000350:45
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(30.3=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(2.8=11.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCAAACTGGAGTATTAAGAGCCT
R:
CTGTGGGATGTGAGGACCAC
Band lengths:
238-990
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)