HsaINT0157149 @ hg19
Intron Retention
Gene
ENSG00000104450 | SPAG1
Description
sperm associated antigen 1 [Source:HGNC Symbol;Acc:11212]
Coordinates
chr8:101196184-101196961:+
Coord C1 exon
chr8:101196184-101196290
Coord A exon
chr8:101196291-101196855
Coord C2 exon
chr8:101196856-101196961
Length
565 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
CAGATAACATTTATTTCTAGGTC
3' ss Score
6.3
Exon sequences
Seq C1 exon
ATTTGACGTGGAGAAGGAATGTTTAAAAATTGATGAAGATTACAAAGAAAAGACGGTAATAGACAAGTCACACTTGTCTAAAATTGAGACAAGAATAGATACAGCAG
Seq A exon
GTAATTGGAGAAAAAATAATAATTTAGTAGTCTTTAAAGTTTTTCAATTATAATAAAAAGTGTCAATCTAGAAGACATTGTCTTTGAGTACTGCACAGATTACCATGAAAAGTTTATGGATTTTCTCTTACAGTTGACCACTCAACAAATTCACTTCTCTCTTTTACCCACTTAATTTTTAAATGTAGTAAGGCTTTAAAATATAAACCTATTTTTCTTACTGTAATTCATTTGTTTTTAATTCCTTTTTTCCAATCCTCTTTTTCCTCCAAATTCCTAAAATTGTTTTCTTTTTGCTTCAAAACAAAAAGATGGGGCAGTTTATTGGACTAGCACCTATAAAGTGAAACGAAATCAATCATTAAAAAAATTCTGAATCCTCAAAACTTGTGAATGATTTAAAAAGAAAACATCCCTAAGCTTGGGGAACCTTTTATTTTCTTTTGTTTATTTTATGATCTTTCTGCTTTCTTCTGCTTCTGTTAAAATAAGCATTCTTAGATTTAAACTTGAAAAATTCTGTTAAATTATACGTTTACATATAGCAGATAACATTTATTTCTAG
Seq C2 exon
GTCTAACTGAGAAAGAAAAGGATTTTCTTGCCACTCGTGAAAAGGAGAAAGGAAATGAAGCTTTCAACTCAGGAGATTATGAAGAAGCAGTGATGTATTATACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000104450-SPAG1:NM_172218:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.333
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134141=TPR_11=PU(39.4=72.2),PF0421213=MIT=PU(44.6=69.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACGTGGAGAAGGAATGTTT
R:
TGGTATAATACATCACTGCTTCTTCA
Band lengths:
209-774
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)