HsaINT0000663 @ hg19
Intron Retention
Gene
ENSG00000198691 | ABCA4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:HGNC Symbol;Acc:34]
Coordinates
chr1:94526093-94528309:-
Coord C1 exon
chr1:94528133-94528309
Coord A exon
chr1:94526316-94528132
Coord C2 exon
chr1:94526093-94526315
Length
1817 bp
Sequences
Splice sites
5' ss Seq
TTCGTGAGT
5' ss Score
7.9
3' ss Seq
CTTCTCTCCTTTTGCTTTAGTTT
3' ss Score
9.46
Exon sequences
Seq C1 exon
GTATTGGGATTCTGGTCCCAGAGCTGATCCCGTGGAAGATTTCCGGTACATCTGGGGCGGGTTTGCCTATCTGCAGGACATGGTTGAACAGGGGATCACAAGGAGCCAGGTGCAGGCGGAGGCTCCAGTTGGAATCTACCTCCAGCAGATGCCCTACCCCTGCTTCGTGGACGATTC
Seq A exon
GTGAGTCTGAAGTTCGCGATCCTCCTCCATGACACGCTAATGGGGGTGCTGGAGTGGGCTGGGGTGGGCTGGGGGTGCCCTCAAGGCTTCCATGTCTTTAGAGAGAGCCCCAGGGACCAGAGCCAAATTGGAGAGCATGGAGCTCTGACTGAGGAACCTGCTTCTCCCAAGCTCCAGGCAGGCACAGATGAGTCAGTGCAGTGGTGGGAAAGGGAAAAGAGTTGATGTTGTAGCTGGAAAAGGGAAGGGGAAAATTAAAGCAAGGAAAGTGAGGCTGGGGGAGGGGACAAATTCCCCACTATGTAGTATGTTTGGTATGTGGAAGGGTTCTGGTCAGAATGTTTGCCCAATGATTGCCACATCAGCATTCATTTTGGACTCTGTATGGCCAGTAGGTCTGGTTCCTGGGAGCCCTGGAATAATGCAGCCCCTTCCCTAACTAACATTTCCATGATGTATGCTCAATGACAAGGCAGAGGAATGTGTTGGATGAGCTCAGGACCTGCCTCCCTGGACACTCCCATCCCAGGCCTGTATATCTGTTGACCAGGAATAAGCCAAGCAAGCAGCCTACTGTTTGACTGAATATGGATTTGGGGGGTGGTAGAGAAAGGGCCGGGGTGGAGGGTTGGGAGGCTCATTTGTCATTATAGATGGGGTCAGACACACTACCAAAACAGCAGCAGAGATCTACAATTGAGTTCACCTAAAACTCAGTGTGGACACAGGAAACCCTCTTTTAATAACTGTCCAATGGGTTTTCCAGCCTCAGCTCTACAGAAAACTTGAGATAACAGTGGCCAGTCTGCAGTTAGTTTGGGTTCGGACAATAGGCAGAGCTGGGAAATGGAGCCAGGGGCGAAAGCCCAGGTCCACTTTAGGATCAGGACGGGAGTGGCTGGTGGGGAAGTGAGGTGGGTGTGGGGAGGCAATAGGGAGCTGGGTCATTTGGTATGGGAGAGTCCTCTGGTGGCTAGTCCCAGAAGTGCATGCTTTACGAACATATGCTTCTCTCCCTAGGGCCACCTTGAGTGAAACCCTCCCATGCTGGAATTGGGCCCTTTCAGTGACAACACACAACAGTTTTCAATAGATAATAATCCCAAGGGCTTTACTAGCACATGAAACACAGGGAAAACGTGTAAAGTTCACAAGAAAGTCGTTCCAGTGTATCAAATCTATCCTGTTTGCCAGGTGGATATACCAGGGTCTCCTCCACCTGTGCATGGCTGGTGGTGGGTCCAGTGGCTGTTGGATAACTGATGTATTGATGGATCATTCGCCTTCTGAAAGTGCCAAACTGATTAGTTATTTTGTGTGTCTTTTTGTGTAACTAGGGTTTGACCTTCCAGGGCAGACTGTGCTGGGGCGGCTGACCCCTTGGGGAGCCAAGTTATTGCTCTTACCACCACCACTTGCCCTTGTCAGTCCTCCACCCTCTTGGGTTTCAGTGTCAGCATGTAGCTGTCTACTCAGATCCCATCCACATCATCAAGTCTGCAGTTTTTTCCTTGCAAGGCCTTACAGGGAAGATCTTTGACATAGAGGATATAATTTTATTGACACATTTTACTTGCAGAGCATTCACCCGGGCTAACCAGAAAGCCAGCACTCTGCTATAAACAAAAAATAATGCTTCAGGGCTAACATGGAATGTGTTAAAAGATTCCAGCCCATTAAATGTCCAGGGGAGGTTTTCCTGTTTTCCTTTCCCTCCATCTGGGCTTTGTTCTCAACACATTCATTCAACAAACATTTATTCTGCCTCTACCAGGTACAGAGCACTCTACTATTCTGCTTCTCTCCTTTTGCTTTAG
Seq C2 exon
TTTCATGATCATCCTGAACCGCTGTTTCCCTATCTTCATGGTGCTGGCATGGATCTACTCTGTCTCCATGACTGTGAAGAGCATCGTCTTGGAGAAGGAGTTGCGACTGAAGGAGACCTTGAAAAATCAGGGTGTCTCCAATGCAGTGATTTGGTGTACCTGGTTCCTGGACAGCTTCTCCATCATGTCGATGAGCATCTTCCTCCTGACGATATTCATCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198691-ABCA4:NM_000350:13
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=PU(22.2=65.0)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(21.5=100)
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:
GATTTCCGGTACATCTGGGGC
R:
TCGTCAGGAGGAAGATGCTCA
Band lengths:
352-2169
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)