HsaINT0158410 @ hg19
Intron Retention
Gene
ENSG00000197694 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 (alpha-fodrin) [Source:HGNC Symbol;Acc:11273]
Coordinates
chr9:131395087-131395944:+
Coord C1 exon
chr9:131395087-131395234
Coord A exon
chr9:131395235-131395487
Coord C2 exon
chr9:131395488-131395944
Length
253 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
TGCCATCTCTTACCCCACAGAAC
3' ss Score
10.83
Exon sequences
Seq C1 exon
AGATGGCCATGTCTCCTTGCAAGAATACATGGCTTTCATGATCAGCCGCGAAACTGAGAACGTCAAGTCCAGCGAGGAGATTGAGAGCGCCTTCCGGGCCCTCAGCTCAGAGGGAAAGCCTTACGTGACCAAGGAGGAGCTCTACCAG
Seq A exon
GTATGGGCCTCAGGAGGTGGGTGAAGAGGTGTCCTTTGGAAAACTAAAGCCAAATTTGTGGCAGAGCTGAGTCTGGGGTAACAGGCCCTGCGCTGGGTATTCTCCCCATTTACAAATCAAACTCAGTATGGACAGAAGTCCCGGATCTGCTTGTAGAAGCAGCTCCGAGCCCCCAGCATCCTGAGACCTGGGAGGTCGGGTTTGAAGTGGGTGCAGCTGGCTCAGGCACCAGGTGCCATCTCTTACCCCACAG
Seq C2 exon
AACCTGACCCGGGAACAAGCCGACTACTGCGTCTCCCACATGAAGCCCTACGTGGACGGCAAGGGCCGCGAGCTCCCCACCGCGTTCGACTACGTGGAGTTCACCCGCTCGCTTTTCGTGAACTGAGCCACTCCCTGGGTCACCCACCCCTCGCTGCTTGCCCTGCGTCGCCTTGCTGCATGTCCGCTCCTCTGTGTGCTCTCACTTTCCACTGTAACCTTAAGCCTGCTTAGCTTGGAATAAGACTTAGGAGAAAATGGTGCTTCACTAACCCGCTTCCGGTCCAGTCACAATCATCATGTCACTGTGGGGACCCAGATCTGTGTCTTGAAGCAGCTGCCCTCATTCCGACTTCAGAAAATCGAAGCAGCTGGCTCCTCCCCTTGTTCTCTCTCCCACCCTCCCCCAAATCTGTTTTCATGTAAAAGACAAATAAATGATGACTTCCCCCAAAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197694-SPTAN1:NM_001130438:56
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.160 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PD(17.3=26.0),PF087265=EFhand_Ca_insen=PU(41.4=58.0)
A:
NA
C2:
PF087265=EFhand_Ca_insen=PD(55.7=92.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGACCAAGGAGGAGCTCTA
R:
GCGGGTTAGTGAAGCACCATT
Band lengths:
301-554
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)