HsaINT0158371 @ hg19
Intron Retention
Gene
ENSG00000197694 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 (alpha-fodrin) [Source:HGNC Symbol;Acc:11273]
Coordinates
chr9:131349885-131351222:+
Coord C1 exon
chr9:131349885-131349977
Coord A exon
chr9:131349978-131351087
Coord C2 exon
chr9:131351088-131351222
Length
1110 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAAC
5' ss Score
4.58
3' ss Seq
CCCTTCCTTTGGATTTTTAGCAA
3' ss Score
7.12
Exon sequences
Seq C1 exon
GCTCTACTGAAGAAACACGAAGCTTTGATGTCAGATCTCAGTGCCTACGGCAGCAGCATCCAGGCTTTGCGAGAACAAGCACAGTCCTGCCGG
Seq A exon
GTAAACTTGTAACAGTTTATGGGTTACTGGAGGGAGGCCTTGAAGGACTCAGATACTGTCAGCAGGTGTTCCTATCATAGGCCCCATTTGACTCTGCTATTAACTCTTGTGACACAAAGATTTACAGAGTTTAAAATAAGATTTATTTATTTATTTATTTATTTAGAGACAGAGTCTCACTCCGTCGCCTAGGCTGGAGTGCAGTGGCACAACCTCGGCTCACTGCAACCTCCGCCTCCTGGGTTCAAGCGATTTTCCTGACTCAGCCTCCTGAGTAGGTGGGATTACAGGTGTTCACCACCATGCCCAGCTAAATTTTTTTTTTTTTTTTGAGATGGAGTCTTGCTAGAGTGCAGTGGCACTATCTTGGCTCACTGCAACCTCTGCCTCCCAGGTTGAAGCAATTACCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACTGGCGCCCGCCACCACGCCCAGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACTATGTTGGCCGGGCTGGTCTTGAATTCCTGACCTCATGATCTGCCCGCCTTGGCCTCCCAAAGTGCTGGGATTATAGGTATGAGCACTGTGCCCGGCCCTACTTTAAAATGAGATTTTTTTTTTTTTTTTTTGAGATGGAGTTTCACTCTTGTTGCCCAGGTTGAAGTGCATTGGCCTGATCTTGGCTCACCGCAACCTCCGCCTCCCAGGTTCAAGTGATTCTCCTGACTCATCCTCCCGAGTAGCTGGGATTACAGGCACGCACCACCACGCCTGTCTAGTTTTGTATTTTTAGTAGAGATGGGGTTTCTCCATGTTGGTCAGGCTGGTCTCGAACCCCCGACCTCAGGTGATCTGCCTGCCTCAGCCTCCCAAAGTGCTGAGATTACACGTATGAGCCACCGTGCCCAGACAAAATGAGATTTTTTTTTTAAAGATACCAAAAATTTAAAGTTCTTGGATCAGATTTTATTGGTAGCTTCAGTGAAGAATTCTCATGAGTGTATATTTGGTACATTTGGTACAGCTGGTGGCATTTGAATCTGCTCTGTACTTAGATGACTCAGCGCGGACGTGTTTTTACCATGTTTGCCCTTCCTTTGGATTTTTAG
Seq C2 exon
CAACAAGTGGCCCCCACGGATGATGAGACTGGGAAGGAGCTGGTCTTGGCTCTCTACGACTATCAGGAGAAGAGTCCCCGAGAGGTCACCATGAAGAAGGGAGATATCCTTACCTTACTCAACAGCACCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197694-SPTAN1:NM_001130438:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.194 A=NA C2=0.174
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(35.7=100)
A:
NA
C2:
PF0043516=Spectrin=PD(17.9=33.3),PF0001823=SH3_1=PU(63.0=64.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTACTGAAGAAACACGAAGCT
R:
TGTTGGTGCTGTTGAGTAAGGT
Band lengths:
226-1336
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)