HsaINT0157144 @ hg19
Intron Retention
Gene
ENSG00000104450 | SPAG1
Description
sperm associated antigen 1 [Source:HGNC Symbol;Acc:11212]
Coordinates
chr8:101252631-101254130:+
Coord C1 exon
chr8:101252631-101252999
Coord A exon
chr8:101253000-101253118
Coord C2 exon
chr8:101253119-101254130
Length
119 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TTTTTTTTTGCTTCTTTTAGATG
3' ss Score
10.96
Exon sequences
Seq C1 exon
GTGAATGAAGGCAAGGAGGAGCCTGGAAGACCTGCAGGGGAGGTCTCCATGGGATGCCTTGCTTCTGAGAAGGGAGGCAAAAGCAGCAGGTCACCAGAAGACCCTGAGAAACTTCCGATAGCCAAGCCTAATAATGCCTATGAATTTGGTCAGATTATAAATGCTCTCAGTACCAGGAAGGATAAAGAAGCCTGTGCACATCTTTTAGCCATCACTGCACCAAAAGATTTGCCGATGTTTTTAAGTAACAAACTTGAAGGGGATACATTCCTTCTCCTCATTCAGTCTCTGAAAAATAATCTTATTGAAAAAGATCCCTCATTGGTGTATCAGCATCTTTTATACCTGAGTAAAGCAGAAAGGTTTAAG
Seq A exon
GTAAGTGGCTAAGTATTTTATTAGTAGAAATTGGTTTTATTAGGGTTTCTGTAACTTAAAAATGTTACTTATGCTAACATAGTTGGTTTTTTGTTTTTTTTTTTTTTTGCTTCTTTTAG
Seq C2 exon
ATGATGTTGACACTAATTAGCAAGGGCCAAAAGGAGCTAATTGAACAGCTGTTTGAGGACCTTTCGGACACACCAAACAACCATTTTACTTTAGAAGATATACAGGCCCTAAAAAGGCAGTATGAGCTTTAAATCAAGATAATTGTTAGATTTCTTCCATGCATGTATGTGTTCCAGGAATGTTAATGAGATGGTATTGTAAAAGAGTTGCATGGATAAAACTTGGCCTAGAAAAGTTTGGTCTGCACTATAAAACATTTTACTTATTTTCCTACATAGAACATGTATATTCTACAATCTGCTTTTTATTAGTTGTAAATATTTTCTTATGTACCAGAACCAAATAAGTATATTTAGAACTTGTTAAAAATACATTTTAATTTATGATATACATATTATTTTAATTACTTGTTAAAATTTTGAGTTAAGTTGCATTTCTTTGGGCTATGAAGGAGTCCTCTTAAGTTTGATAGAAATGAATTTCTTGTAACATTCTTTTTTAAAAGTGGAAGTCATTAACAGTGATTATTATATCACTTATATCCTGCTAAGATACACATAAATCCCATTTTGTACTAGTACCTGTGGATTACAGTCAGTTAAAATGAAATGCAACACTGAAGTCTATAACATGAAATGATTATTAAATTGTTTATTAATTTAGAGCTATAAGAGGAACTTATTTTTTCTAATACGGAAGCATTGCCTAATAATTAAGAACAAAAATTGCCAAAAATTTCTACCACTTTTTACTAGATTTTAAAAAGCTACTTTCTTTTATATTGCCTATATAAGCAAAAAACCAACCACTGTATTAAAGCAAACTAAGCCTGCATTTATATCTGAATTATTACCTCCATATTTTACCAAACATTTGAATGTCCCCCTTCCCCCTTTTTTGTTTTCTGCTTTTATGACTGTATTTATTCCTTTACTGTAAAAGAATATGAAGAACTCATACATGTTGAAAGCTCCTTTGTTGACTGGGTCAAAGTGAAGGAATTTCAATCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000104450-SPAG1:NM_172218:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138771=RPAP3_C=PU(86.5=67.5)
A:
NA
C2:
PF138771=RPAP3_C=PD(11.5=25.0)
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:
AGCCATCACTGCACCAAAAGA
R:
TGGTTGTTTGGTGTGTCCGAA
Band lengths:
246-365
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)