HsaINT0158394 @ hg19
Intron Retention
Gene
ENSG00000197694 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 (alpha-fodrin) [Source:HGNC Symbol;Acc:11273]
Coordinates
chr9:131377911-131380039:+
Coord C1 exon
chr9:131377911-131378119
Coord A exon
chr9:131378120-131379918
Coord C2 exon
chr9:131379919-131380039
Length
1799 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGT
5' ss Score
7.44
3' ss Seq
GTTTCCCATCTCTCATTCAGGGA
3' ss Score
9.38
Exon sequences
Seq C1 exon
GATCGCCTGAAGGACCTGAACAGCCAGGCAGACAGCCTGATGACCAGCAGTGCCTTCGACACCTCCCAAGTAAAGGACAAGAGGGACACCATCAACGGGCGCTTCCAGAAGATCAAGAGCATGGCGGCCTCCCGGCGAGCCAAGCTGAATGAATCCCATCGCCTGCACCAGTTCTTCCGGGACATGGATGACGAGGAGTCCTGGATCAA
Seq A exon
GTATGTCTTCTCAGCCCTCTAGAAGGCCCCTTACGCCTGTAATAGTGGGCAGCAGGAACCACAGGCTGACTGTTGAGTGGTGAGGCTGGAAACCCTGCTGGACTGGGATCCCAGCTTGGGCACACAGTCGTGGGATGCCTCAGTGTCTTCTGCTTTCCGGGTTTACAGTGATGATAATTGGCGGTGGTGGTGATCCATGCTGGCTACATAGGCCCTGTCTAGACCCTGCCTTTTAGATTCCCGTGAAAGTTAGTGAGTTTGTTTCTGAGCTTCTGGAGAAGATCACTTCTCCAAGGAAGGAGTTGCTTTTTTTCTTATTCTCTATCTGTCCCCGAAAATGTCAGTCTACTGATTCCAGTTGATGTGGCAGGTAAACAAACATTTTTTTTTCTGAGATGGAGTCTCGCTCTGTCACCAGGCTAGAATGCCACCATGCCTGGCTAATTTTTGTATTTTTAGTAGAGACAGGGTTTCACTATGTTGGCCAGGCTAGTCTCGAGCTGACCTCACCTGACCTCAAGTGATCCACCCACCTGGGCCTCCCAAAGTGCTGTGATCACAGGCATGAGCCACTGCGCCTGGTCGGAAGGCTTTAAGGAAGTAAGGAATTAAGAGAGAGGATTTTGTTCTTAAAAGACGTTTGTGGCCGGGCGCAGTGGCTCACGCCTGTGATCACAGTACTTTGGGAGGCTGAGGCGGGCAGATCACTTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAATACACAAAAATTAGCCAGGTGTGGTAGCAGGCGCCTGTGGTCCCAGCTGCTTGTGAGGCTGAGGCAGGATAATCGCTTGAACCAGGGAGGCGGAGGTTGCAATGAGCCAAGATCGCACCACTGTACTCCAGAGCAAGACTCCGTCTCAAAAAAATAAAAAATAAAAATATAAAAATTAGCTGGGCATGGTGGCACGTGCCTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATGATTTGAACCTGGGAAGTGGAGATTTCAGTGAGCCAAGATCGTGCCACTGCACTCCATCCTAGGCGACAGAGCAAGACTTTGTCTCAAAAAATATATATATTACTTATATAGCTGGGTGTGGTGGCTCACGCCTATAATCCCAACACTTTGGGAGACCGAGGTGGGCAGATCACTTGAATCCAAGAGTTTGAGACCAGCCTGGGCAACATGGTGAAAACTCATCTCTACCAAAAATAGAAAAAATTAGCCAGGCATAGTGGCGCACACCTGTGGTCCCAGCTACTCCGGAGGCTGAGGTGGGAGGATCACTTGAACCGGAGTGGCGGAGGTTGCAGTAAGCAGAGATCATGCCATTGCACTTTAGCCTGGGCAACAGAATGAGACTCTGTCTCAAAAAAAAAAAAAGTGTGTATATATGTATATATATAAATATCTTTGTATATTTACAGACATATATTGATATATTAATACATATTTAGTATACATGATTGATATATATTGATATAATTTGATAGGGCTCCTCAGGGCAGCACTAGTGATGCCTCCCATCCTCCAGTGCATCCCCAACCCTCCAGAATCCGGACACACAGCAGGGCTCATAGATGCATAGATGGACAGAGGTTCTTGGTCCCTACTCATTTGGGAAGTAGAGGCTTTTGTTGTTCAGAAAACTGGCAAGGATTTTCCCAGAAAGATTAGTAGATGTCTGTGAGGTCCACAGTTGACCTGATGTCCCCACTTGAAAGCAGGGAGGTGCAGAGACTGACTGTGCTGTTTCCCATCTCTCATTCAG
Seq C2 exon
GGAGAAGAAGCTGCTGGTGGGCTCAGAGGACTACGGCCGGGACCTAACCGGCGTGCAGAACCTGAGGAAGAAGCACAAGCGGCTGGAAGCAGAACTGGCTGCGCATGAGCCGGCTATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197694-SPTAN1:NM_001130438:41
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.122 A=NA C2=0.070
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(47.6=71.4),PF0043516=Spectrin=PU(16.2=24.3)
A:
NA
C2:
PF0043516=Spectrin=FE(38.1=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:
GATCGCCTGAAGGACCTGAAC
R:
CTGAATAGCCGGCTCATGCG
Band lengths:
330-2129
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)