HsaINT0158399 @ hg19
Intron Retention
Gene
ENSG00000197694 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 (alpha-fodrin) [Source:HGNC Symbol;Acc:11273]
Coordinates
chr9:131386607-131387458:+
Coord C1 exon
chr9:131386607-131386766
Coord A exon
chr9:131386767-131387381
Coord C2 exon
chr9:131387382-131387458
Length
615 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
TTCCACACTTCGTTTTCTAGGTG
3' ss Score
10.16
Exon sequences
Seq C1 exon
AACAATCACCATGAGGAGAACATCTCTTCAAAGATGAAGGGCCTGAACGGGAAAGTGTCAGACCTGGAGAAAGCTGCAGCCCAGAGAAAGGCGAAGCTGGATGAGAACTCGGCCTTCCTTCAGTTCAACTGGAAGGCGGACGTGGTGGAGTCCTGGATCG
Seq A exon
GTGAGCACTGTCAGCAAGGCCCGGAAGAGCCTTCCCAGAGCTGCTCTTTGTCTCCTTCCGTGTCATTGGTTTTCTTCTGCAGAGAAGAAACTGATCAATTGTGGGCATGGCAGAGAACCTACTACCAGGGCAGACCACTGACTGCCAGCTAGGAGGAGACAGTGTCCTGAGGCCAGAACTGCCACCCGGAACTGGGCTGGCACCAGGGTCAATAAACAAAAGCCTGTAAACGCTGCTGCACGCAGAGATGGCATAATGTGACGTCATGGCATGAACAAAGTTGGCACAGCAAAGGCACCACTAGCTGCCCTGGTCAGGGGCGCCACCCAGCTCCTGGGTGAGGGAAAACTGGGTCCGGATATCGGGGTCCACGTGTCCTGGGTAGTAGTAATAGCAACTGAACTAGAAGACGGGCTGCAGGGAGCTCGTCATGGCACAGATGGAGGCCAGGCCTGGGTGCAGGGAGGGGCCTGCTAATGTGGGTTCTGAGGCTGTAGTTAGGAAGATTGGGATTTATCTGTACACAAAAAATGGTTTGTCTGGGTTTTGATGTTTTTCCTTTCTAATCCATCTCCACTGAGGAGGGCAGTATATTTTCCACACTTCGTTTTCTAG
Seq C2 exon
GTGAAAAGGAGAACAGCTTGAAGACAGATGATTATGGCCGAGACCTGTCTTCTGTGCAGACGCTCCTCACCAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197694-SPTAN1:NM_001130438:46
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.296 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(32.4=63.0),PF0043516=Spectrin=PU(16.0=31.5)
A:
NA
C2:
PF0043516=Spectrin=FE(23.6=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:
TCACCATGAGGAGAACATCTCT
R:
CTGTTTGGTGAGGAGCGTCTG
Band lengths:
232-847
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)