HsaINT0157137 @ hg19
Intron Retention
Gene
ENSG00000104450 | SPAG1
Description
sperm associated antigen 1 [Source:HGNC Symbol;Acc:11212]
Coordinates
chr8:101225318-101226146:+
Coord C1 exon
chr8:101225318-101225656
Coord A exon
chr8:101225657-101226046
Coord C2 exon
chr8:101226047-101226146
Length
390 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
TAATTAAATGTGATTTTTAGGAA
3' ss Score
6.41
Exon sequences
Seq C1 exon
AGCCCGCGGAGCCGGCGGGAGCCGCGCGCGCCGCCCAGCCGTGCGTCATGGGCAACATCCAGAAGAAGCTGACTGGCAAAGCCGAAGGCGGCAAGCGGCCGGCAAGGGGCGCGCCGCAGCGGGGCCAGACCCCGGAGGCCGGCGCGGACAAGCGGAGCCCACGGCGGGCCTCTGCGGCGGCGGCGGCGGGCGGCGGCGCCACCGGGCATCCGGGCGGCGGGCAGGGCGCGGAGAACCCTGCCGGCCTGAAGAGCCAGGGCAACGAGCTGTTCCGAAGCGGGCAGTTCGCCGAGGCGGCCGGCAAGTACTCGGCGGCAATCGCGCTCCTGGAGCCAGCAG
Seq A exon
GTAGGTGCGCCGCGCCCCGCCGCTTCCTGGGCCCCTCGCGCTGCGGTTCACCCGACCTCCGGGGCCCCCGTGGGAGAGGCGCTGCCGCCTCCTGAATGACAGGCGCCGGCATCGCTGCATTCCTCCCAGGTGACTAAGAGCGCCGTGCCACCTGACCTCAGTGAGCAGCACCTGGGAATGCCGGCATGTTCCCGGCCAGGCACGTTTGCCTCCGTCCCCGCCGGGTTTTCCCTTGGTGGCTGTTGCGGGTAGCAGCTCCGTGGAGTTCTGCATGATCAGTCTGCAGGACTGCAGTGCCACCCCACCGGAGACCTCGGCCGTCTTGTAATTCTGGTGAACTGTGATCTTGCTAATGGATTTTAACTGTATTTAATTAAATGTGATTTTTAG
Seq C2 exon
GAAGTGAAATTGCAGATGATCTAAGTATCTTATATTCAAATAGAGCAGCATGTTACCTAAAAGAAGGAAACTGCAGTGGCTGCATTCAAGATTGTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000104450-SPAG1:NM_172218:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.781 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PU(47.4=31.6)
A:
NA
C2:
PF134141=TPR_11=FE(43.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGAAGCTGACTGGCAAAGC
R:
GCCACTGCAGTTTCCTTCTTT
Band lengths:
358-748
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)