HsaINT0000781 @ hg38
Intron Retention
Gene
ENSG00000154262 | ABCA6
Description
ATP binding cassette subfamily A member 6 [Source:HGNC Symbol;Acc:HGNC:36]
Coordinates
chr17:69123239-69125035:-
Coord C1 exon
chr17:69124888-69125035
Coord A exon
chr17:69123408-69124887
Coord C2 exon
chr17:69123239-69123407
Length
1480 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
GTTGCCTCTTGGTTAATTAGATG
3' ss Score
4.44
Exon sequences
Seq C1 exon
ATTATCAAACTGGATTATAACTTGAATGGTGTAATTTTTCCTGACCCTTCAGGAGACTCATATACAATGATAGCAACTTTTTCTATGTTGCTTTTGGATGGTCTCATCTACTTGCTATTGGCATTATACTTTGACAAAATTTTACCCT
Seq A exon
GTAAGTAATAGTGAGTTTTTCTCTGTCCTCTACAGTTATTAATTACATTGAATATATTTTTTAAGATTATATAGACTTTTAAAATGAATATTAAATATTTCCCATTTCAAACTAATAAGTTCATTATTTCTACTTCATAGTTCTAATGGTCTAATGAAATTTTTATGTAAAAACAATTCTTCTTATGACTTTACTATAGCAATATATTATAATTATATGACAACAATAATTATAATACATCTTGTAATTGTGTGGTAATTAAATAATGTTAGGTTTTCATGGATCCCTGAAAGTGTTTTGAAAGGGTCATATTAGGATTTATGTCAAAACAAGATAAAAGAAATTAGTTCTTATGGTGGTTTGGCTCTCGGGAGGCCATTATACTGTGGAAGAGCTTTCTCATGAATATTTGTTCAGCATCATTCTCAAAATGTTTTATATATTGTTCATATTTACAGAAGTATATTGATCGCCCAGTTAAATTATCTTGCAAACAACCAAAAATGTCACGTAAGCCCAGAATTTTTTCACACATTCTAGAATCAGAAAGCTTTTTTTCTGGCACAATCTTCTTGTTTATCCTCTTATTTTATATGTTCCTTCCACTATTTAAGGTTGTCTTATAGGTTTTCTATGTATTTACTTGTATATATTCCTGTCTTTCTGTGACTTCTGGTTGATATGTGAAGGCCCTTAATAATAAATTCAACTTTGTTTTTTAAACTGGAAAAATATATTTAAAATATCACTATAAATTTATTCTAAACAAATACAGTTTCTCCATGTATTCATGCCTAAGCAGGAATATATAGATTTCAATATTATGTTCAATTATGTTGCTGTGGTCAAATTATTTAAGTTGACAAACATGTCTACAATTATTTTTATGCACTGTATTAAGGCTTTGTGTCTTCCCAAATATTTGGTTTCATTCATTCTCCTAAATACCTTTTAGATCACATTTTAAAAAAATTTAATAAATATGTTTATTGGGTGATACAAATCTGTTTTTCATGAGCCTATTAAGGATAATGCAACCCATTGTTAAGACTGGAAAAAAAGGACATATAATGGTTTCCTTGTTGGGTGTCCTTTTCTACAGATGTAGACAACAGAGGCTCTAAGATCTGTACTAATGTCTTGATCAGGGAAAAGCTGGAGTCCAACTCAGCTGGTCATACACCTAATATTTTATTCGAACCTCACTTTCCTATTGACTTTCTTTTTTTTGATCACATTCTATTTATACTTTGTTGAAAGCTGTATTATATTGTTTAATTTTGCAATATGTTATTTCCTTTGAATTCCCATTGTTTACTTCATCATCAAGTTTTCTTCTTAATAATAAATTGAGTTTTAGAAGAAAAAATGTCTCTATGATGCTTAAAACTTCAAGGCATTCTGCATTGTTGTTAGCAAGGCTTCTTTGCGCATTCTTTTACTATTACTGATCATATTTTGTTGCCTCTTGGTTAATTAG
Seq C2 exon
ATGGAGATGAGCGCCATTATTCTCCTTTATTTTTCTTGAATTCATCATCTTGTTTCCAACACCAAAGGACTAATGCTAAGGTTATTGAGAAAGAAATCGATGCTGAGCATCCCTCTGATGATTATTTTGAACCAGTAGCTCCTGAATTCCAAGGAAAAGAAGCCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154262:ENST00000284425:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.035
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PD(10.8=84.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACTGGATTATAACTTGAATGGTGT
R:
CTGATGGCTTCTTTTCCTTGGA
Band lengths:
311-1791
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development