HsaINT0158401 @ hg19
Intron Retention
Gene
ENSG00000197694 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 (alpha-fodrin) [Source:HGNC Symbol;Acc:11273]
Coordinates
chr9:131388048-131388966:+
Coord C1 exon
chr9:131388048-131388257
Coord A exon
chr9:131388258-131388669
Coord C2 exon
chr9:131388670-131388966
Length
412 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TCAGTCTCTTCTGCTTCCAGGTG
3' ss Score
10.84
Exon sequences
Seq C1 exon
GAAACTTTTGACGCTGGGCTGCAGGCCTTCCAGCAGGAAGGCATTGCCAACATCACTGCCCTCAAAGATCAGCTTCTCGCCGCCAAACACGTTCAGTCCAAGGCCATCGAGGCCCGGCACGCCTCCCTCATGAAGAGGTGGAGCCAGCTTCTGGCCAACTCAGCCGCCCGCAAGAAGAAGCTTCTGGAGGCTCAGAGTCACTTCCGCAAG
Seq A exon
GTGAGGATGGGGCCACGTGAAGCTTAGCTGGCCCACAGCTCAAGGAAGGACGCCCACCTTCTGTCTGCCCAGCTCTGCCACTCCCCCTTGAGGAAGCTGTGAGCTCAGTGCAGAGCTTTCAAACATGGGTGTGGCTGGCATCAATTAAAACCAGGGCAAATGAGAGGGCCCTGTGAGATCGCCATTCAGAAGCACGCAGGACAGACTAGAGACAAGGGCAAAGGGTAGGAAGGGGAAAAAAGGCTGGTGAAGACTTGAAGGGGGAGCAGGAGACAGGAGCAGAGGGGAGCTAAGCTCCCAGCAGGCTGTGTGCGCCTCTGATTCCCAGGAACCACCCCGCACCCCACCTCCTGCACTGCGTCGGCACGTCCAGCCCTGGCGACTCCGCCAACTCAGTCTCTTCTGCTTCCAG
Seq C2 exon
GTGGAGGACCTCTTCCTGACCTTCGCCAAAAAGGCTTCTGCCTTCAACAGCTGGTTTGAAAATGCAGAGGAGGACTTAACAGACCCCGTGCGCTGCAACTCCTTGGAAGAAATCAAAGCTTTGCGCGAGGCCCACGACGCCTTCCGCTCCTCCCTCAGCTCTGCCCAGGCTGACTTCAACCAGCTGGCCGAGCTGGACCGCCAGATCAAGAGCTTCCGCGTAGCCTCCAACCCCTACACCTGGTTTACCATGGAGGCCCTGGAGGAGACCTGGAGGAACCTACAGAAAATCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197694-SPTAN1:NM_001130438:48
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(58.5=88.6)
A:
NA
C2:
PF0043516=Spectrin=PU(91.4=97.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACACGTTCAGTCCAAGGCC
R:
GAAGCTCTTGATCTGGCGGTC
Band lengths:
342-754
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)