HsaINT0158363 @ hg19
Intron Retention
Gene
ENSG00000197694 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 (alpha-fodrin) [Source:HGNC Symbol;Acc:11273]
Coordinates
chr9:131344758-131345128:+
Coord C1 exon
chr9:131344758-131344835
Coord A exon
chr9:131344836-131344972
Coord C2 exon
chr9:131344973-131345128
Length
137 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
AGGGGATCCTTGTCTTTCAGCTG
3' ss Score
5.22
Exon sequences
Seq C1 exon
GCATTAGATGAATTTGCAACCAAGCTAATTCAGAACAACCACTATGCAATGGAAGATGTGGCCACTCGCCGAGATGCT
Seq A exon
GTAAGTTTGTAGGTTCTTCATGCTCCTCCTTTTTGGTACATGAATGTCTCTTCTAAGATGTTCCAGTTAAGTCTCTTCAACTGGATATCCCTTTGGGAGTGAACACTAGAGACTCACAGGGGATCCTTGTCTTTCAG
Seq C2 exon
CTGTTGAGCCGCCGCAATGCCCTTCACGAGAGAGCCATGCGTCGCCGGGCCCAGCTAGCCGATTCTTTCCATCTGCAGCAGTTTTTCCGTGATTCTGATGAGCTCAAGAGTTGGGTCAATGAGAAGATGAAAACTGCCACAGATGAAGCTTATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197694-SPTAN1:NM_001130438:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.135
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(23.8=100)
A:
NA
C2:
PF0043516=Spectrin=PD(19.0=38.5),PF0043516=Spectrin=PU(27.9=55.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATTAGATGAATTTGCAACCAAGC
R:
TTTATAAGCTTCATCTGTGGCAGT
Band lengths:
234-371
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)