HsaINT0158404 @ hg19
Intron Retention
Gene
ENSG00000197694 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 (alpha-fodrin) [Source:HGNC Symbol;Acc:11273]
Coordinates
chr9:131389665-131390221:+
Coord C1 exon
chr9:131389665-131389777
Coord A exon
chr9:131389778-131390203
Coord C2 exon
chr9:131390204-131390221
Length
426 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCCA
5' ss Score
3.75
3' ss Seq
CTTGGATCTGCTCTCCACAGGAC
3' ss Score
8.79
Exon sequences
Seq C1 exon
GAGAGGGAGCTGGAGCTGCAGAAGGAACAGCGGCGGCAGGAGGAGAACGACAAGCTGCGCCAGGAGTTTGCCCAGCACGCCAACGCCTTCCACCAGTGGATCCAAGAGACCAG
Seq A exon
GTGCCAGCCCGCTGGGGCCGGGGAGCAGCAGCATGTCCCTGCTGTACTTAAGCCCTGGGGAGCTTCCAGCCCCAAGGAGGTGGTGGTGCTTTGTGTAAAACCAGAGGCAGCCTGGGAATAAAGCTGGGCTGGCAACGCCTGGTCGGGCTCTGGAGCCGGGAGTGGGGGCATAGGTGGAGCAGCCTCTCAGTGCTGCATGTCCCAGACATCAAGTTGTTAGAGATCCCGGATTGAGTGGGACCATGCAGGGCGCGTGGTCAGCCCCAGCCATGACTTGGTGACAGACGATGCAGGGTCTGTGCGTTGGGTACTGATGTTCTTGCTTTTGTTTTCCTTTCTTTCTTGTGTCTTCTCTCTGTCCCCCCGATTGCTGCTGTTGTCCGGACACCACCTTGTCTCCCGGCTGCTTGGATCTGCTCTCCACAG
Seq C2 exon
GACATACCTCCTCGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197694-SPTAN1:NM_001130438:50
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.438 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(6.7=15.9),PF0043516=Spectrin=PU(24.5=59.1)
A:
NA
C2:
PF0043516=Spectrin=FE(20.7=100)
Other Inclusion Isoforms:
NA
Associated events
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
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)