HsaINT0000662 @ hg19
Intron Retention
Gene
ENSG00000198691 | ABCA4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:HGNC Symbol;Acc:34]
Coordinates
chr1:94528133-94528873:-
Coord C1 exon
chr1:94528668-94528873
Coord A exon
chr1:94528310-94528667
Coord C2 exon
chr1:94528133-94528309
Length
358 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
GTCCCTCTGTGTCTTCTCAGGTA
3' ss Score
11.79
Exon sequences
Seq C1 exon
TGCTTGGTCCTGGATAAGTTTGAAAGCTACAATGATGAAACTCAGCTCACCCAACGTGCCCTCTCTCTACTGGAGGAAAACATGTTCTGGGCCGGAGTGGTATTCCCTGACATGTATCCCTGGACCAGCTCTCTACCACCCCACGTGAAGTATAAGATCCGAATGGACATAGACGTGGTGGAGAAAACCAATAAGATTAAAGACAG
Seq A exon
GTGATGTTTCAGGAAGGGCTCGCTGCATTTCTCCAAAGTCAGTGGGAAATTACATTTGGTAGAGAGAAAGGGATTGAGACTGGACTCATAAATCAATAAAATTAAGTTAAATAAGAAAAAATAAGATATTTTATAAAGCTCAACAAAGAGTCCTTGAATGAAAGCAATTACAGAGTCACATTGTGGCTAATATTCAAAACTGAGATTTAAACTGAGGACTAGGAAATAGAATTGGATCCTTTTGAAGCGTTTAGGAGAAAGATTTTAAGAGAATGAGTTCCGAGTCACCCTGTGGTCGGGAGGTGTGAGTGAGCTATCCAAGCCCGTTCCCATCCTTTGTCCCTCTGTGTCTTCTCAG
Seq C2 exon
GTATTGGGATTCTGGTCCCAGAGCTGATCCCGTGGAAGATTTCCGGTACATCTGGGGCGGGTTTGCCTATCTGCAGGACATGGTTGAACAGGGGATCACAAGGAGCCAGGTGCAGGCGGAGGCTCCAGTTGGAATCTACCTCCAGCAGATGCCCTACCCCTGCTTCGTGGACGATTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198691-ABCA4:NM_000350:12
Average complexity
IR-S
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:
PF126982=ABC2_membrane_3=FE(19.8=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(22.2=65.0)
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:
TGAAACTCAGCTCACCCAACG
R:
TCCACGAAGCAGGGGTAGG
Band lengths:
342-700
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)