HsaINT0000422 @ hg19
Intron Retention
Gene
ENSG00000154263 | ABCA10
Description
ATP-binding cassette, sub-family A (ABC1), member 10 [Source:HGNC Symbol;Acc:30]
Coordinates
chr17:67223286-67225001:-
Coord C1 exon
chr17:67224722-67225001
Coord A exon
chr17:67223427-67224721
Coord C2 exon
chr17:67223286-67223426
Length
1295 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TTTTTTCTTTTTTCCCCTAGCTA
3' ss Score
10.26
Exon sequences
Seq C1 exon
AGCAATAAACAAATACCAATGATGCGCTCAGCCAACAATTCATTACACTCTCTGAAGAGTAACTGGACAAGGAGAAAAACATAGGGAAAAAACCAACAGAATTTGTTGGCATGTTCTACACACAGACCATGGCTTTTCAGAAGCCAAGCTGAATCAAAACAGTTTTAAAAGAGGCAACCATTTGTAGAGGAGTCCTTGAAGGATTCTTCATTGTTTTCTTGGACAAAAAGAGACCAGTGGATCCAAGTGCTTCAAATACTTCTCTCTTATTTTCTTAACT
Seq A exon
GTAAGTTAAAATTTGTTTTACATTTTCACTTTGCATAAGGTTTTAAAGATATAAAGTATATAGCCAAAGCCAAACATATTGATTGAAATTTTTAAAATTATATTATTCAGATGCTCTAAATTATTTTATGCTTTATGTTATAGTACTAGTGAGTTATTTTATTTTAAAAACTTATGTAACATTTTAGTGTGATAAATGAAAGATGGCTAGATTCAGAGGTGTATATAAATATTATCAGACAATAAATTCTCTCTCTGACACTGCTTTGAATATCCTTTTGAGAATTTGTATGGTTTTACTTCTTTAGAATGTGTGAGCATTAGGGCAAGTTCCTTTTTTCTGTGTTCTTTTGTTCTTTTAAAATGTTTTTGTGGTTTGCTTATGGAGCTGTTTAAGTAGACCTCTGTATCCATAAAGTGAAGATTGGTGTTTTAATGTTTCTACTTTCTTAAGTTAGAATTTAGAGATTATATTGGGTTTTGCTGGCTTTGCCTTTTATTTTATGAAAAAGGGGAAATATAGCAAGTTCTCTCTGAACATTGTAATTTGTATATAATATCAACATTTATTCAAATGGACTTCAGTAGTCATAGTTGTGACACCAAATGATCAGCTCTGGATTTTCAAATTGAAAACAAAGAATAAGGATCATTATTACAAATCAATTACTCTAGTCATATTAGCCAATATTTTTGGTTTTAATCTGTATGTATCTTACATATTTACTTCATAAATGGAGATTTAAAAAAGAGGAATTAGCTTTTTGGGATTCTAAGAATGGCCGTAATGTTTTCGACTTTGCTTTGCCCAGTGGTTAACAAGATATCAAATACATGTGCCCAGATGTGCAATTCAAAATAAGACAGCTTGTGGTCAAATTGCTGACTGACAAGGAACTGCAAAGTGGTTTCTTCCTGTTAAACTTCTTTTTCTTAACAAGTAAAGAGAAAGTGTTTTTTGGATTCTAAAAATTACTAAGATCTTATTGAGGGATTTACTTTAGGTGGATGTAATGTTAAGATTTCATGGAAAAAAAGTGACTTCTGAGACAAAAGGAGAAAGGTCTTATATACTATCTCCTTTATCTCCCTCATAGCCATAAAAGCCTGGAGAGAAATAACAACTGAGAAGACATTTTATAATTACTAATACTTTATATTCTTTTTTAAAATCCTGATTGAATATGTTGCTACAGTGTCATATAAGGCATTTAGTTGGCACATCTGAAAATTATGCTTTCAAAATGTTCAAAGGCTTTCTGTAACTGAACTTTTTTTTTTTCTTTTTTCCCCTAG
Seq C2 exon
CTATTGCTCTGCAATATTTACTTTACCCTGTTAATGAACAGGACAAAATGGTTAAAAAAGAGATAAGCGTGCGTCAACAAATTCAGGCTCTTCTGTACAAGAATTTTCTTAAAAAATGGAGAATAAAAAGAGAGTTTATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154263-ABCA10:NM_080282:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
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:
GCGCTCAGCCAACAATTCATT
R:
CCTGAATTTGTTGACGCACGC
Band lengths:
344-1639
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)