HsaINT0158411 @ hg19
Intron Retention
Gene
ENSG00000197694 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 (alpha-fodrin) [Source:HGNC Symbol;Acc:11273]
Coordinates
chr9:131339102-131339552:+
Coord C1 exon
chr9:131339102-131339235
Coord A exon
chr9:131339236-131339407
Coord C2 exon
chr9:131339408-131339552
Length
172 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTCA
5' ss Score
1.32
3' ss Seq
CTGGTGCCTTTGTTCTGTAGGGA
3' ss Score
9.02
Exon sequences
Seq C1 exon
GAGCAGCACCCTGAGGAGGAACTGATCAAGACTAAGCAGGATGAAGTCAATGCAGCCTGGCAGCGGCTGAAGGGCCTGGCTCTGCAGAGGCAGGGGAAGCTCTTTGGGGCAGCAGAAGTTCAGCGCTTTAACAG
Seq A exon
GTGTCAAGCCAGAGTGGGCTTTGGGGAATGGGTCTCAACCTGGAGGGGAGTTGTGAAGCACAGGGCATGTGCTGGTGAGCTGTCGAGGCTGACTAGGCCTTGGTCCCATGGGGTGTTCCTAGTTCTAGGGAGTCATCATTGCTGTGGATTAACTGGTGCCTTTGTTCTGTAG
Seq C2 exon
GGATGTGGATGAGACTATCAGTTGGATTAAGGAAAAGGAGCAGTTAATGGCCTCTGATGATTTTGGCCGAGACCTGGCAAGTGTTCAGGCTCTGCTTCGGAAGCACGAGGGTCTGGAGAGAGATCTTGCTGCTCTAGAAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197694-SPTAN1:NM_001130438:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(32.7=75.6),PF0043516=Spectrin=PU(6.7=15.6)
A:
NA
C2:
PF0043516=Spectrin=FE(45.7=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:
GCACCCTGAGGAGGAACTGAT
R:
ATCTCTCTCCAGACCCTCGTG
Band lengths:
253-425
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)