HsaINT0000889 @ hg19
Intron Retention
Gene
ENSG00000154258 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:39]
Coordinates
chr17:66982305-66985259:-
Coord C1 exon
chr17:66985168-66985259
Coord A exon
chr17:66982466-66985167
Coord C2 exon
chr17:66982305-66982465
Length
2702 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
AATGAACTTATTTTGCATAGGTG
3' ss Score
5.11
Exon sequences
Seq C1 exon
GTGAAGTTATAGGACTGTTAGGACACAATGGAGCTGGTAAAAGTACAACTATTAAGATGATAACTGGAGACACAAAACCAACTGCAGGACAG
Seq A exon
GTCAGTAAAACGTACAGGAATATGGTCATTAGTGCTACCTACAAAGAATATTGATGGCAATAATAGACTATGTAGTTGATCCATAATCACTTAGTGTGATTTATGCATTGAATAAAGAAGATTGATTAAAAATTTATATACTTAATTCCAAAAACAGTTTGTTTCTGAGAAGGGCTACATATCATATATACTATGCCTTTTATTGAGTGAAAAATAAAGATTTTAAAAGGAAATATATCTTCCTTAAAGTCAGATATCTTTGCTTTATTGATTTATGCATCCCATGAACTTTGTCGAATTTAATGCCCTCACCCAGCATGACACCAGAAACCACTGTCAGAATAATGACAACTCCTGCCTATGTGGTTGCAGAGCCATGAGTCTTCATATTTAATGACTGTCCTCTAGCTATATGCTATAATTAAAGATTATGTGTGACTTGTGTAACAATAAGAGTCCATTAGCGAGTAAAACCTCATAGGTCTTTAAGAAGGTATATACCACAGAAACTTTCCTACAATTATTGAAACATTTCTTGGCCCTGATGATGTAATGTAGTGATAGAGCAGTTGAGGGTATTATTGCAGATACACTGAAATTCTTGAAGGACAATGGTGATTCTGGGCTAATGGTAAAAGATCCAGGATTTAAGACAAGAGAAATCAGATTTAATGAAAAAAAAATGGATAATTATCTAAATTGCAAAACAAAAGCTAGAATAATATATGAGTACCATTTAGTGGTATGTCTAGGCCAAGTTTGGGTAAAATGATGGACAGAAGCCAAAGGACCACAACTTCCAAGAGGAAATGCTATTGACCTTGAACATGAGCTCAATGTCAGAGGGAGTGTTTATGAAGGAAGGTCGCACAGTGGCGTTCAATGCTACAGAGGTTTCCTGTCCTTCCATTTCCACTCTTGCCTCACACTGCAGCAAGAACAGTCCTTAAAAATGCAAATGAGGTCCGGGCACGGTGGCTCCTGCCTGTAATCCCAGAACTTTGGGAGGCTGAGGCAGGCAGATCACCTGAGGTCAGGAGTTAGAGACCAATCTGACCAACATGGAGAAGCACCATCTCTACCAAAAATACAAAATTAGCCAGGCGTGGTGGTGAATGCCTGTAATTCCAGCTCCTCGGGAGACTGAGGCAGGAGAATTGCTTGAACCCGGCCGGGAGGCCAAGGTTGCGGTGAGCTGAGATAGCGCTATTGCACTCCAGCCTGGGCAACAATAGAGAAACTCCATCTCAAACAAAAAAACAAACAAACAAACAAACAAACAAAAAAAAACGCAAATGAGGTCATGTCAATCTCCCATGTACAACCTCTCACTTAGAATTGATCCAAAATCTTTACCATGGCTGCAACCAGCCCAGCATGATGTGGTCTGTTGACCGCCTGCTCACATTGGCCTTGAGGCACCTTCTCGCTGTGGGATCTTTGGGTTTGATCTTCCTGTGGCTAGAGTGCCCTTCTGTTGGCTCCTCATGTGCTTGGCTGTCTCCTTCTCATCGCTTAAAAATTTATCTCCCCAAAATGCCTTTTCCTAACTACACTGTCAGCTAAATTAAATCCTCCCTGTTATTCTTTAGCATATCTATTTCCTTGAAAGCACAAGGCAGAGGTTATAAATTGTTCACTTACGTGTTTACTTACTACTTATATTTTATGTTTCTTTCTCCAAAATGAAAGCTCAATGAGGCAAGGTTAACTAGCTCTCTCCTTTGTACTGGGGGGAGACAATATAGCATCAAGGTCAAGGACTTGGATTCTGAAGGTGGATCCCAGCTTCAAGTCCGAGATTTACCTTGTTGTGACCTTGTACAAGTTTCATAATCCATGCTTGTGATAATTTTCTGTATGTAAAACATCAATGATAAAACAAACACCTAACACATACAGGGGTTCTGTAAGGATAGGATAATGTAATTAAAAATATATTATATGCTTAGATTCTGGCACATAGGAAGCACTGAGGACACATTAGATGTTCTTATTATTGTAAAGCATAGCCTGGCTAATAAAAATAATAAATGCTATCATGTGTATATTGGTTCCTACGGGCTAGATACAGTGCTAAAAGTTTTTTGTTTATTTCTTAGTTCAGAATTTCTCAACCTCGATATTATGGACTTGATAATGTCATTTTGCTGTGGGGAGCTGTTCTGTGCATAGTAGGATGTTTGGCAGCACCCTTGGCCCCTACTTACTAGATGCCAGTAATACTGTTTTCCCAATGCATACACACATGAATTGTGACAACCAAATGTGTCTCCAGACATTGTTAAATATCCCCTAGGAGGAGGATTCCCCTGGCTGAGAACCACTGCCTTATTGCAAGATAAATCCTATAATTATAACTATCACTGGCGAAACAGAATTCTCAACAAGTATCTATTCCTTTGAATGTTTGGATCAATGAATGAAGCCAAGTAAAAGACACTCAAATCAGCAATCTTGAGTTCAATCACGGTCATGGAATTGGTAGTAAAGTCTACACTACAATGGATAACCATGGAATGTCTGCCTTTTAAAGTGGGCTTTTACCACCTTTTCCCCAAAGTTAAGTGATTACTGATTTGCATTTGTGCACTTAGCACCTGTGTGTGTGAAGAGAAGGGCATCTCTGAAGTACGGCTTACATGCATATACATATACGTGACATTTGGGATAGAATCTAAGAATGAACTTATTTTGCATAG
Seq C2 exon
GTGATTTTGAAAGGGAGCGGTGGAGGGGAACCCCTGGGCTTCCTGGGGTACTGCCCTCAGGAGAATGCGCTGTGGCCCAACCTGACAGTGAGGCAGCACCTGGAGGTGTACGCTGCCGTGAAAGGTCTCAGGAAAGGGGACGCAATGATCGCCATCACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154258-ABCA9:NM_080283:31
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.202 A=NA C2=0.056
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(21.3=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(37.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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
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)