HsaINT0000511 @ hg19
Intron Retention
Gene
ENSG00000179869 | ABCA13
Description
ATP-binding cassette, sub-family A (ABC1), member 13 [Source:HGNC Symbol;Acc:14638]
Coordinates
chr7:48317691-48321049:+
Coord C1 exon
chr7:48317691-48319517
Coord A exon
chr7:48319518-48320939
Coord C2 exon
chr7:48320940-48321049
Length
1422 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
GTATATATTTTTTTGCTAAGTGT
3' ss Score
3.44
Exon sequences
Seq C1 exon
TTTTGTCCCAAAAGATAAAATTCTAGAAATTCTGAAACTGGATCAATTTCTTACCCTGATGATACAAGACAGATTGATGAACATTTTTTCAAGTTTAAAGGAGACTATATATCACCTAATGAAAAGTTCATTTATATTAGACAATGGAGAATTTTATTTTGATACTCATCAAGGACTGAAGTTCATGCAAGATTTATTTAATGCCCTTCTCAGGGAAACTTCAATGAAAAATAAGACTGAAAATAATATAGACTTTTTCACAGTGGTGAGTCAGTTGTTTTTCCATGTGAATAAGTCTGAGGACCTCTTCAAACTCAATCAAGATCTTGGGTCAGCTCTTCACCTTGTAAGAGAATGTTCAACAGAGATGGCAAGACTTCTGGATACAATTTTACACTCTCCTAATAAGGACTTCTATGCTTTGTATCCTACCCTCCAAGAAGTTATACTTGCTAATCTAACGGATTTGCTTTTCTTTATAAATAATTCATTCCCTCTAAGAAACAGAGCAACATTAGAAATTACTAAGAGATTAGTTGGTGCTATTTCAAGAGCAAGTGAAGAAAGTCACGTCCTGAAACCCCTCTTAGAAATGTCTGGGACTCTGGTCATGCTGTTGAATGACAGTGCTGACCTGAGAGATCTTGCCACATCAATGGACTCCATTGTGAAACTTCTTAAGCTGGTCAAGAAAGTTTCGGGGAAGATGTCCACAGTTTTTAAAACTCATTTTATCTCCAATACCAAGGACAGTGTGAAATTCTTTGACACTCTGTATTCCATCATGCAACAAAGTGTTCAAAATCTTGTGAAAGAAATAGCTACTTTAAAAAAAATAGATCATTTCACATTTGAAAAGATAAATGATTTGTTGGTGCCATTTCTTGACTTGGCCTTTGAAATGATTGGGGTAGAACCTTATATATCATCAAACTCTGATATTTTCAGTATGTCACCTAGCATACTCTCATATATGAACCAATCTAAGGACTTTTCTGATATTTTGGAAGAAATTGCTGAATTTTTAACATCTGTGAAAATGAACTTGGAAGATATGAGGAGTCTTGCGGTAGCATTTAACAATGAGACTCAAACATTTTCTATGGATTCTGTCAACTTACGGGAAGAAATTCTGGGTTGCTTAGTTCCTATAAATAACATCACCAACCAAATGGACTTCTTATACCCTAATCCAATTTCCACTCATAGTGGCCCTCAAGATATAAAATGGGAAATAATTCATGAAGTGATCCCTTTTTTGGATAAAATATTATCACAAAACAGCACAGAAATAGGATCTTTCTTGAAAATGGTGATCTGTCTCACCTTAGAAGCTCTTTGGAAAAACTTAAAGAAAGATAATTGGAATGTTTCTAATGTGTTGATGACATTTACTCAGCATCCAAATAACCTTTTGAAAACCATAGAAACAGTTTTAGAGGCCTCCAGTGGAATTAAAAGTGACTATGAAGGTGATTTGAATAAAAGTTTATATTTTGACACACCTTTGAGTCAGAATATAACTCATCATCAACTTGAAAAAGCAATCCATAATGTTTTAAGTAGAATAGCTCTCTGGAGGAAAGGACTTCTGTTTAACAACTCTGAATGGATAACTTCCACAAGAACTTTGTTTCAGCCACTTTTTGAGATTTTCATTAAAGCAACCACCGGAAAGAATGTCACATCAGAAAAAGAAGAGAGAACCAAGAAAGAGATGATTGACTTTCCTTATAGTTTCAAACCATTTTTCTGTTTGGAGAAATACCTGGGAGGATTATTTGTATTGACTAAATACTGGCAACAAATCCCACTAACAGATCAAAG
Seq A exon
GTAATTAAAAAGCTGAATTCACTTTGTTTTTTTCTCTACCGCAGTAGCTATAAAATAGAACCATGCAGGAATTACAGTGAATCGGGGTAAGTAGTTCTTCTTGACTTCAACTTTGTTTACACTCTGAAGTTGGCTTCAACATAGAGCAATTCAGGTCCAGTCATTCTTTTTCATAATTCGACTCATTATTTGGCATTCAAATATAATTGCAGTTTATTCAAAATATTTCAAAAGTAAGTTATTTTATTCTCAGAAGCAAAAACCTCTTATTCTATTCACTCATCCCAAGACTAGTTGCATAAACAATTTTTCTGTTCATATCCTCTGGCAGCCAAGGGTCCTATGACTCAGTATACACACAAGAACATGAAGCTGCTTGCTTCACAGAAAATTATGCTTTCAGTTGTAGCTAACCACAGGAAAGGGCCAGGCAGCTGCTGGCTTCTGCCCTTTTTTGATTCTGCCAGACTTCACGTGGTTGATCCACCTCCAAGCCCTCCTATCGCTGAAAGTTATGTCCATAGAAACCTGTTCTTAAAAGCTCCAGTCTTGCTAGTTGTCATGCCTTGGAAGCAGTCTGTTGCCTTAGGTTGGAGACCCTGTGCCTCTTGATGTGCAGAGGCCCAGAGATGCTGCAGCTGTCCCTACCTGTCCTTTCTGTGGGTGAAAATACTGTTAGGGTGGTCCCTGGTCTCTGTTTCTCCCTGCTTTCCTCTCTGGCCCACATGGAGATTGGAGATGCCATGTCAACCCTGGTTCATTTGCCAGGCAGGCTGACTTATTTTCTGTTGGTTCTATTACTCCAGAGATGTACCTTGAATCCAGTCATGTTCTATGAGTTGGAAAGATGTCTTTAGTTGGTGAAACAGGTAGCCACTGGCACAAATAACTATTGCTACCTAGGAATTTGACTGCTAGTTTTCAGAGCTTCCTTCTTCATCTCCTCCTTGCTTCTGATGTCAAACTATATTTTGTTTGACTTTAGTGCTCTTCTCTGAATTGTCTTTTGAGCTGAGGTGGTCCTGGCAACCCCATTCTCCACCAATCTCAGGTTTTATCTCAAATTTTTCAGTTCTCCACAGAGGGAGTTTATACCTTAGCTCTTCATACCATCATGTTTTGACACCTTTTCAACATTTACCTTTGCATTTCAAAAGAATAGAACAAAAGAAGAAAGAAAAGCAAGTATTAAGCTTATTGGCCACAAAATTGATGCTTTGAAATAATTCTGGAGACCTAAAGTTTTCTAAAGGTCCAGAATGTGTTATCTGTGTTTTCTTATGTTCCTATGAAGAAAATATGATTATGCAGGGAGGGAGGATGGTTCTTACATGTGTGTTATAACTTAACCTACACAGTAGAGATGCACATGGGTTGCACATTTTTACCCTTTTATGTCATTGTATATATTTTTTTGCTAAG
Seq C2 exon
TGTTGTTGAGATTTGTGAAGTTTTCCAGCAGACTGTGAAGCCCTCAGAAGCCATGGAGATGCTGCAGAAAGTGAAGATGATGGTCGTACGTGTGCTCACCATCGTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179869-ABCA13:NM_152701:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.007 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
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTCTCTGGAGGAAAGGACT
R:
GTGAGCACACGTACGACCATC
Band lengths:
357-1779
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
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)