HsaINT0000674 @ hg19
Intron Retention
Gene
ENSG00000198691 | ABCA4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:HGNC Symbol;Acc:34]
Coordinates
chr1:94505599-94506958:-
Coord C1 exon
chr1:94506765-94506958
Coord A exon
chr1:94505684-94506764
Coord C2 exon
chr1:94505599-94505683
Length
1081 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
ATCCCATCCATCTGTTGCAGGGG
3' ss Score
8.69
Exon sequences
Seq C1 exon
GCAGAACCATCATCATGTCCACTCACCACATGGACGAGGCCGACCTCCTTGGGGACCGCATTGCCATCATTGCCCAGGGAAGGCTCTACTGCTCAGGCACCCCACTCTTCCTGAAGAACTGCTTTGGCACAGGCTTGTACTTAACCTTGGTGCGCAAGATGAAAAACATCCAGAGCCAAAGGAAAGGCAGTGAG
Seq A exon
GTAGGTGTCTGCCCAGGGAAGGACCCTGGCCTGGGTGAGAAGGAGCACACAGCACGGGGCTGCCACTCCAGACATGGCTACTCACACAGGCTCTCGCCACCAGAATCAGTGTCTTTGTTCTGGGACCATTTGCAGAAGATTTCGATGAACACATTCTGAAGCCTCCTCCTACAGAGATGCTTTAGCCAAAATGAAACAACTAGCTTTAAATGGTCTGCAAGTATTACATGCCAGATTACACACCAGTTTGGTGCGGTTTGGTGCAACATAGAAGTGAGTGTCTTATTCTGTAAGGTTAGGCTGTTTTAAGAGCAATTGGTTGAGCTTCATTTCAACATTAATATTCCCTAATTAAACCTGAATTTCAGTGGTAAGTGAAAACTAAGAAGAGGCCTCCTTGGGTGCTATAACATAAAAATGATGAAGGCAAAAAGTACCAACCAGCAGAGACCACTTCAGCACATCAGGAGACCCAGTTTTATGTCTGTGCTGCGAAGTGAACAAACTGTGTCATCCTAGGCAAATTATTTAATTCCTCCTTTTTTTTAGTATTTTTTTCTTCTTCACATGGAACATGAAGCTAATGACCTCTGCTTCTATTTCTTAGGGATGTGAAGATAAGTGAGATAAAGTATTATAAATGTGCTCTGGGCTTCTTAAGAACAGGCATTGCTCACATTCAAATGGTCATGATTATGATATGGCAGCATTATTTATGCCTCTGGTTTAAGTGTCTGGCTGCCGCTGGGGTTTCCTATGTCCATCCACGGGGAGGGAGGCACAGAATGTCTCCCACAGGCAGAACCTACAGCTGCCACATAATTGATGACAAGCCAAAGGGACCCTTGGAGGTTCTGCTCCTCTCTGTGTGTGACTCACACACTCTCTAGGATAAAATCAAGCGACTACACCCTCAAAATGCTCAGATGAATTAACAGATTAAACAGTGAAGAAAAAAATGTGTTGACTACACTTGGCAGTGAGAAATAAATAAAGCGGGCGGTGACAGCAGCTGGCATCAGGGAGAGGCTGTCATGGAAGGGATGTGCATCTTGTCAGTCATCCCATCCATCTGTTGCAG
Seq C2 exon
GGGACCTGCAGCTGCTCGTCTAAGGGTTTCTCCACCACGTGTCCAGCCCACGTCGATGACCTAACTCCAGAACAAGTCCTGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198691-ABCA4:NM_000350:23
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGAACCATCATCATGTCCACT
R:
CATCCAGGACTTGTTCTGGAGT
Band lengths:
279-1360
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)