HsaINT0000883 @ hg38
Intron Retention
Gene
ENSG00000154258 | ABCA9
Description
ATP binding cassette subfamily A member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr17:68993016-68996014:-
Coord C1 exon
chr17:68995895-68996014
Coord A exon
chr17:68993085-68995894
Coord C2 exon
chr17:68993016-68993084
Length
2810 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
ACTTACTGCTCATTTTACAGATT
3' ss Score
9.3
Exon sequences
Seq C1 exon
GTGGTCATCTTCTCGATAGTTGCTACTGATCTAAATGAATATGGATTTCTAGGGCTATTTTTTGGCACCATGTTAATACCTCCCTTCACATTGATTGGCTCTCTATTCATTTTTTCTGAG
Seq A exon
GTAAGTAGTTCCACTTCTGTCTGAGGGTCATGAAATGTGTGGTCATTTGAGAAAGCCATGAATATTGCAAAAATATAGATAGAGTCCTCAGCTGTGCAAAGTTTAAAAGTCTCTGTCTTTGGAAAGTCAGTTCTCTTGCCACGCATGGATAAGGGGCATGTTCTGATTCAGTAGGAAGCCAGCTTTGGTTTATGACAAGTCAAAGGCAACTCCAGGAGAGTGGAAGTTTAGTTCTCATGATAACTCTCACTGCTGGGAACCCTACTGGGAGGCCAAAGAGATGCCCCTTTTTTGTTAAGTTTTGGATATGTTAGGTTTGAGAAATGTCAAGTAGCCAGTTAGATACATGAGTCAGGAATTCAATGTGTCAGGGTGTGTGGAGATGGGGGTTAAAGCTAGATATTTGAGATTGATCAGTTTATAAATGGTATGAAAAGCCATGCGACAATAATATGACCTACGCGGTGAGTAGAGATAGAAATAAAAAGAAGGCCAATGACATGACCTTAAACTCCAAAATTTAGAGATTGGAAAGCAAATACATGATCTTGAACTCCAAAACTTAGAGTTGGTGAAGAGGAGGAGCCAGCGAATCCATTTGAGATGGAGCCAGGGAGATAAGAGAACAAAAATGGTAGCCTTCTGTGTGCTGGAGGCTCTTCTCAGACGCTCATAAGGGTGTGTGCCAGATGGCAATAAAGAACATTTCAAGAAGGAGGGAGTGATTAAACCATCAAATGCTATTGTGAGTTCTAGAAAGATGACAACTGAAAAGAGACCATTGGCTATGACTACACGAACGTCATTGGTGAGCTTCACAAGGTCGATTTTAATGAAAGTGTCAATGCAAAAGCACAGTAAGAGTGAACTTAGTAGAAAATGTGAGGGGAGGATGTGGTGACTGTGAGTACAGGCAAATATTTCTAGGAGATGTGGCAAAAAGCGTAGCAGAAAAATTCAAGAATAAATGAATAGGGAGGGTAGATTTTTGTCTGTGCTAAGAAGGAAAATACTATGCTGATGTTAGAGAAACTCATGCTGGAAAAGAGAGATAGAGGTTACCTCATGAGTCAAGTCCATGAATAGGTGAGAAAAAATAGCGTAAAGTCCACAAGTGGAGGGGGTGCTGTCCATAAAAGCAGGGACATTCCACATGCTTAATATGAAATTATAATCAGAGAATATGAACATAGGAGGCAGAGAGTTTAGTGGCTTTGCTGGTAGAAAGATGAGATGATTCTCTTCTGACTGATTCTACCTTTTTTAGGAAAGTAAGAGGGGAAGTCATTAACTTGGCCAAGGGGGCTTGGGATTTGGAGAAAAAAAGATGTGAAAAACTATTTCAGAACGTAGGTCATTAGGATGGACAGACAGTGCCGAAGACCCTCTGCCCTACTTTTCAGCGAAGTCAGCAAAGTAGAGAGTTTCTCTTATTACAGCCTGCTTTTAAATGCAGTTTAGGAAAGGCAGAGAGTTGGGTTCAATCAGGGTTGGACACTTGGCAGGCAAATTTGACAAAGAAAAGAATATGTGAGCAGTAGTTCTATATAAAAAGGAATTGAAGATATAATGGATTCTAAGCTAGAAAATGAAGTTAAGGACATGAGGGTGATTATGGACAGTGGAAAAGGAGTTGGTGGGTTAGAGGTTCTCCAATTCCAAATTATGGAGTAAGAACACTAGCATAAGGATGCCAAAAAACTAAAATGTACTGGCAGAGGCCAGGTGCGGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGTGAATCACCTGAGGTCTGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCAGGGCATGGTATTGGGTGCCTGTAATCCAAACTACTCGGGAAGCTGAGGCAGGAGAATTGCTTGAACCCAGGAGGCAGAGGTTGTAGTGAGCCAAGATCATGCCACTGCACTCCAGCCTGGGCAACAGAACAAAACTCTGTCCCATAAAAAAAAATATAGTATCAGCAGAGAGAGTAGAGATCTGGGAGCCAGAGGTTCAGTTTGGATGAGGTGCAATTATTGAAAGTGGGCAACTGGGGCACCTAAGAAAACAAAATCATTTGAAATGATGTCAAGGTCGTGCACATCATCCAATGTGGAAAAGTCATCTTTTCTAGATGGTGGATGGCTGTGATAGTTAGAAATCTACTGCAAAGCGTTTAAAATTGCTCAGGAAACTTGTTGGTAAATATAGCTCAAGAAACAAAATTGTCCTTTTACCTTTTATTTGCAAAAGAGTGGGGAATGTTGGAAAAATGCACTTATATGTATACGTGTGAAACTCTAGGGGAAGAACTTTGTCTTCAGTTTGAAAAGATTGTCATAATTACTCTCAAAAGTGGCTGTAAGAGGGCAAGAGCAATATAAAGATTCCAGGGCCCTTGGGGGCATAATCGAGGGAAGAGCACAAATGAAGACAGAAATACAGGTAAGGTTAGGGGAGAGGGTTTGTCTTAAGACAGACTTGGCATTGCTTCAAAGGATCCTGCCAGCACCAGCCCAGGATTCTCCTAACAGAGCAACTCCTGCTGACTCACAGTGTTACATACAAAGGCATCCCGGCCTAGAGACACACTGGAAGCAAAGAAGACATACTGCACAGTCCGAAATTAACTTTTACATGATACCCAAGGGAGCATCAGGTCGAATGGTTGTAAGGCCATTGAATAGGCATCAGTTTATCTTAAGTGGGATAAATTCCATGAATAAATAAAGAAGGTTCACCTGAATACACTTACTGCTCATTTTACAG
Seq C2 exon
ATTTCTCCTGATTCCATGGATTACTTAGGAGCTTCAGAATCTGAAATTGTATACCTGGCACTGCTAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154258:ENST00000340001:26
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=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(12.8=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(7.2=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
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