HsaINT0000409 @ hg38
Intron Retention
Gene
ENSG00000165029 | ABCA1
Description
ATP binding cassette subfamily A member 1 [Source:HGNC Symbol;Acc:HGNC:29]
Coordinates
chr9:104855566-104858698:-
Coord C1 exon
chr9:104858522-104858698
Coord A exon
chr9:104856089-104858521
Coord C2 exon
chr9:104855566-104856088
Length
2433 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTCAACATTTGTGATGGTAGATG
3' ss Score
3.28
Exon sequences
Seq C1 exon
GTATTTTTGCAAGGCTACCAGTTACATTTGACAAGTCTGTGCAATGGATCAAAATCAGAAGAGATGATTCAACTTGGTGACCAAGAAGTTTCTGAGCTTTGTGGCCTACCAAGGGAGAAACTGGCTGCAGCAGAGCGAGTACTTCGTTCCAACATGGACATCCTGAAGCCAATCCTG
Seq A exon
GTGAGTAGACTTGCTCACTGGAGAAACTTCAAGCACTAATGCTTTCGGAATGTGAGGCTTTTCCTTGGACAGCATGACTTTGTTTTGTAGAAAAGTACGGCTGGCTGGGAGTTTGTGATATAATTTAGTTCAGTGGTATTCTAAGTGTTCTTAGTGTTCTTTCAGACTTTTGGGCCATCTCCCAAAGGGTGAATGGGAAGAATAAGCTGGGTGTGGCTGAGTTTAAGCCAAAAGTTTTTTGTGCTTGTTTCAATCAGAGAAGACCTGCTTTTTCATGTTTTTACTATTATAATACTAAGCAAGAGCTCATTTGAAAACAGAGTTCTTCATATTTAAAAAAAAAAAGTCTTGAAACCATTGATGGGAAGATGGATATCTATTTATGTTTAAAAACCCATCATAAAGATGACATTGTGGGCTGTCACAGTTGGAAGGCCCTGGAATTAGATGAGACCACACTATTTAGCTTACTTAGTAATAACATTGCAAAGAAAAATTCCGACGAAGTTTTTTCAGCCTAGGAATCAATAGTTCAGAGAAGCACTCTATGAGAATACCCATTCATTCTTAACCAAAAAATACTGGTGAGCCTGAGCAGTTTGGTCATCAGAGTGTTTTATATAGTTCCAGAACAAATATGTCTCTAGGTGTTCTGAGAGCTCTGGTGAAATTCCTCTCGCTACCCCAAACATCATCATTTAATATCCAGGATTCTGGTTTTCTACTCACCAGATAGATTCTCTTAAAACCAGGGAAAGATTCCTGGAGGAAGGATGTATCTGGAAAGAGATGTTCCTTATTATAATAAAATGAAATTGTAATACTCTTGGATTTTGTGCAGCACGAATTCTTTATAGAGAGTTGGTCCTCCCAGAGAATTAAGAATACTCAGTTTCTGGACCCTGTTCCCAGATCATACCCTAGAATGTGACCTTAGAAACACACTTCAGGATTCATACCTTTGATTGACCATCAAAAAGTTTTTGTATCGGCCAGGTGTGGTGGCTCACGCCTGTAATCCCACCACTTTCGGATGCCACGGCGGGCAGATCACGTGAGGTCAGCAGTTTGAGACCAGCCTGGCCAACATGGTGAAACCCTGTCTCTACAAAAATACAAAAAATAGCCGGGCGTGATGGTGGGCACCTGTAATTCCAGCTACTCGGGAGGCTGAGGCAGGAGGATCGCTTGAGCCTAGGAGGTGGAGGCTGCAGTGAGCTGAGATCTGTCTCACTCTGTTGCCCAGGCTGGAGTGCAGTGGCGCGATCTCGACTCACTGCAACCTCCGCCTCTCAGGCTTAAGTGATTCTCATGCCTCAGCCTCCGAGTACCTGGGACTACAGGCACCTGCCACCACGCCCAGCTATTTTTTGTATTTTTAGTAGACATAGGGTTTCACTATGTTGCCCAGCTGGTCTCGAACTCCTGAGCTCAAGTGATCTGCCCACCTCGGCCTCCCAAAGTGTTGGGATTAAAGGCATGAGTCACCGTGCCTGGTCCCATGTTATAATTTTAAAGTAAGGTATATTTCTCTACAGGGATCTTTGCAACCCTAAGTAACTGGCCTAAAAAGTTAGAGAAGCTGACTTGTGCAGACATTTGCAGCCTGTTGGTCTTTTTTGTGCTGTGAATCATAGAGGGTGAAAGGTTATTATGAATGGTACAAAACTTTGTTACAAAACCATTTTCTTGGACTGTTTTGGGCTGCTTCACTGCATGACAAATGCTCACCCTTTCAGCTGGAATGATTGAAATTTTGGAAAAGATGGGTGTTTTTAGAAGACATTGTAATTTGTTCCGGTGCTGTGCCCATTCATTCCATTTCACTTCTGTTTACTCATTAAACACCTATTGTGTACACAACCCGGTAAAATCCCTCCACTCACACAATGCCTGAATTATACTCATAGTAGAATGACTGTTTAGCCCTCATCATCTGATAATTAACAGCTCAGGTTTCAACCTGACAGTATCTCTCTGGGAGGATTAGCAGCGTGACAGAGTGCAGGGAAATGCACCTTCAGAACCGTCAGCTACACTGTGTCCCATCCTGCTGTGTTGTGGTTGTGCCTTGTGGATGCGTTGGTTTATGACCAGGTATTGATTAAGGTGGCTACTACCAGGTGCTTTCTGCATATCTCGGGTTTGTGGAGCACTCAGGTTCTGCTTCTGCCCCTCTGCTGTTACCAAGAGACCTCTCTTCAAAATGGGGCTCTTGAGTTAGAGTAGAATGAGTGATCAGGATTGTTTTGTGTAAAGATGATTTCTGAGGAAGGCTTTAGGATGAAATGACTTCCAAACATTTTGAAATGTGACTCTTACTTATTGAATTAAGCAGGGCCTTAATTGGAATGCTGGGACTGATACTTGATTTGCATTAAGCAGCCTTTTTCTATTGCTGCTTGGTTGAAATTTCAACATTTGTGATGGTAG
Seq C2 exon
ATGGATGTGACATGTGATGACATTGCACATGGGCAGTTAACTGTGCCAAGAAGTGCAGCAGTAGCAGCAACCGGAGATGCAAAGCCCAACATGATGGGGAGAGAAACTCTTCTTTCAATATGTGCTTCTGTACCAAAAGTGGAATTTCACGAGAGACATATTTTGAAACATTTCTCCTTTTGTGTGTGCGTGAGTGTTTCCCTGTTTCCAGCCAAGGGTATTGTGAGTTTCTCCTGGGCCTCCTTCAGAATCTGGGTGCTCTGGAAAGCAGTGTTTTGGCAACATGGGGAAAGTATGGCAGTGTGGGAGGGTCAGCTGGGTCTGGGTTTGAATATTGCATTTGAATATTTTACCAGCATTGATGTCGGATAAATTATTTAGTCCCTGTAAGCCTCAGTTTTCTCTTCTTCTACATACACATAATATATTTGACTCTTTGTTGTGATTATTGGTTACACATATGAAGAGCCTGGTGTGGGGCCTGGCACACAATAGGTGCTCAATAAATAGAAGTTGATAATTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165029:ENST00000423487:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.008
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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