HsaINT0158374 @ hg19
Intron Retention
Gene
ENSG00000197694 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 (alpha-fodrin) [Source:HGNC Symbol;Acc:11273]
Coordinates
chr9:131355262-131356652:+
Coord C1 exon
chr9:131355262-131355321
Coord A exon
chr9:131355322-131356453
Coord C2 exon
chr9:131356454-131356652
Length
1132 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
ACCCTCTTGAATTCCATCAGATA
3' ss Score
6.67
Exon sequences
Seq C1 exon
GACACGCATAACTAAGGAGGCCGGCAGTGTATCTCTGCGTATGAAGCAGGTGGAAGAACT
Seq A exon
GTGAGTAGGCTGAGAGTCTTGCAGAGCACCAATGTCCACTGCTACCCTATCCATTCTCCCTCTGCCGCTTCTCTTGAAGGCCTTTGTCCATCCAGAAAGATGAGGTGGTGGGAGGAACTGCCTGTCCGTGCAGCAGCTTTGGCTCACAAGGGAAGAGGTCGCGGTGCAGCTGTGTCGGTCGATGACTGCTTATCTCATTGGTTGCTTCCATGTGCAGCTGTGTGTTCAGAGTGGTGTTGGTTCTCCCTCCTGTTGGTTTTTGTGGTGGACCAGCCACTATCAGCAGCAAACCTGAAGGCCTGTTCTATAGTTTTCCTTAGTAGGAAGGAAATCATATGCTTCTCTTAAAGTGCTCTGATTCTTGGTAACTCATTGCTTTTTTATTTTACTTTGGGACACTTAGATTTGATGATGATTCTAGTTTTTTTTAATTTTTAGTTTTTTATTGTTTGTTGTTTTCGTGTTCAAAGATAATATTTCAGCCTTTTGTATTTTAGTTCCCGAGGGTTAGAATATTCTTTGATTCTTAAGAAATCTTTCAAGTAACAGAATGGCACAGATACTCAGTACTGTGCCTGATTTTCCTTCTGAACTTGCCAAAACTTTCTGAGAGCTGAATGTATCATTTTAGAAATGTCCTACTAATATGGAGATAAAACATCCTATATGAGGATATTTTAAAGCTCAGTGTACCCTCCCCCACCTCACCCCAGCCTGGGGGCTCTTCAGAGAATTATAAAAGACAGAAAAACCCTCTGTATACATTCTGCCCAGCAAGTTCATCTCGTCTCTCCACTGTAGTTGCATGAGCCCTGTGTTACTGTGCTAAGCGCTTGGTTTCAGTCCCTTGTGGTTGTGTTGTTCTAAGTGCAGAATCGGCCTGGGGATAAGTGTGCCTGGCTGTTCTAGCCACCTGGTTGTGAACAGTACAGTGTGCGCATATCTCTCAGGCTGTGGCGTGGGTACTTGGGATCCTCGTCTTCATCTGATAACTCTGTTACTAGGGCATCATCATTACAAACTCGTAGCCTGGAATCCACATCTTGGAGACACCTCGTGGTTTGCCTTTATGTTAGCATCTACAGCTAACTGCCTTCCTTGTCCCTCTTGTCACCCTCTTGAATTCCATCAG
Seq C2 exon
ATATCATTCTCTGCTGGAACTGGGTGAGAAGCGTAAAGGCATGTTGGAGAAGAGTTGCAAGAAGTTTATGTTGTTCCGTGAAGCGAATGAACTACAGCAATGGATCAATGAGAAGGAAGCCGCTCTGACAAGTGAGGAGGTCGGAGCAGACTTGGAGCAGGTTGAGGTGCTCCAGAAGAAGTTTGATGACTTCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197694-SPTAN1:NM_001130438:23
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.027
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043516=Spectrin=PU(54.1=68.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGCATAACTAAGGAGGCCG
R:
TCATCAAACTTCTTCTGGAGCACC
Band lengths:
247-1379
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)