HsaINT0158408 @ hg19
Intron Retention
Gene
ENSG00000197694 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 (alpha-fodrin) [Source:HGNC Symbol;Acc:11273]
Coordinates
chr9:131394710-131394997:+
Coord C1 exon
chr9:131394710-131394763
Coord A exon
chr9:131394764-131394850
Coord C2 exon
chr9:131394851-131394997
Length
87 bp
Sequences
Splice sites
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
3' ss Seq
CCCTCGGCTTTGTGCTGCAGACA
3' ss Score
8.16
Exon sequences
Seq C1 exon
GAACACAACAGGTGTGACTGAGGAGGCCCTCAAAGAATTCAGCATGATGTTTAA
Seq A exon
GTGAGTTCAGCCTTACTCGCCCTGGCTGGGTGGGGGGTGTTCGGCAGCAGGGCTGCCTGCTGAGCCGCCCTCGGCTTTGTGCTGCAG
Seq C2 exon
ACACTTTGACAAGGACAAGTCTGGCAGGCTGAACCATCAGGAGTTCAAATCTTGCCTGCGCTCCCTGGGCTATGACCTGCCCATGGTGGAGGAAGGGGAACCTGACCCTGAGTTCGAGGCAATCCTGGACACGGTGGATCCGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197694-SPTAN1:NM_001130438:54
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.272 A=NA C2=0.340
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PU(16.0=63.2)
A:
NA
C2:
PF134991=EF-hand_7=FE(65.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACAGGTGTGACTGAGGAGG
R:
TCCAGGATTGCCTCGAACTCA
Band lengths:
178-265
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)