HsaINT0157143 @ hg19
Intron Retention
Gene
ENSG00000104450 | SPAG1
Description
sperm associated antigen 1 [Source:HGNC Symbol;Acc:11212]
Coordinates
chr8:101251468-101252999:+
Coord C1 exon
chr8:101251468-101251632
Coord A exon
chr8:101251633-101252630
Coord C2 exon
chr8:101252631-101252999
Length
998 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTT
5' ss Score
7.63
3' ss Seq
TTTTTCTTTTCTTCATGAAGGTG
3' ss Score
8.53
Exon sequences
Seq C1 exon
AATTATCAGAAAAGCTTAATTGATCTCAATAAAGTTATCCTACTAGATCCAAGTATTATTGAGGCAAAGATGGAACTGGAAGAGGTAACTAGACTCCTTAATCTTAAGGATAAGACAGCACCATTCAACAAAGAAAAGGAGAGAAGGAAAATTGAGATTCAAGAG
Seq A exon
GTATTTGTATTTGATTATCTTTGAAAGTACTCCTTTGGGGACCTTAGACTGGATTCTAAGGTCATATTCCTGTGAGTTCTAAAACATTTTTAATTTTGTGTTTTTATTCTGATGATCAGTGACAAAATTTTAACCAGCAACAAAATGTCTCCTTTGCAATGATAATTAGCCATTGTATTTCCCAACGTGGGTCCATGGATGGTACTGGGAGTCTCTGCATTACTGCAGTTCTTCCTTTCTTTGGCCTCCATCTGTACTGCTCCCACTCCAGAGTACACTGGGAACCAGCGGCCACTGACTTTGCTCCAGGGTAGACCTGGAGAATCCTGACGGGACTGATTTTGTTACAGGGGCCCTGAAAGCCTCACCTCATAGAGATTATCCAGATTGATTCAGACCTTTTTAGCACTCTGAAATATGACTGCCTCATCAGAGATCTCGAACTACCTCAGGATCAAACTGCTTTTGTGATTCAGATAACTAAAATGTTTTTCTCTGCCTAATATTAGGGAAGAATGTTAGGCTGTGAATCCCTGTACATTCATGAATGCTAATACCCCATTTATAGTCTCACATTTCCACTAAGAGTAAGAGGCTAATATGTAAGAGAAGCTAGGAAGGTTTTTTTTCCTCTTTAAGGAGGGAAGAAAAAACTGTTTTAGGAGAATCGAGCAATGTAAGTTCATTTCTCTGTTAAAATTTATTGTGAAAAGGAGATAAAATTGACATAGGCATTTATACAACAATTGTATAAAGTCTAAAAATTAAATTTTGTTGTCATAGTTTCAATGTCAAATAATTTTTTAAAACTTTTATGAATTGGATCTTACACCCTAAAACTTCTCTTCCTAAAAAAAATTATTACAAAGTTTTCACTTGGAACTGGACTACAGTACAGTCTACTTGTAGTTTTCAATTCTCATTCTGACAGACGTACTTAGGATGTATGTGGTGATTGTGGTTCAGTGTCACAATGCATTTTTCTTTTCTTCATGAAG
Seq C2 exon
GTGAATGAAGGCAAGGAGGAGCCTGGAAGACCTGCAGGGGAGGTCTCCATGGGATGCCTTGCTTCTGAGAAGGGAGGCAAAAGCAGCAGGTCACCAGAAGACCCTGAGAAACTTCCGATAGCCAAGCCTAATAATGCCTATGAATTTGGTCAGATTATAAATGCTCTCAGTACCAGGAAGGATAAAGAAGCCTGTGCACATCTTTTAGCCATCACTGCACCAAAAGATTTGCCGATGTTTTTAAGTAACAAACTTGAAGGGGATACATTCCTTCTCCTCATTCAGTCTCTGAAAAATAATCTTATTGAAAAAGATCCCTCATTGGTGTATCAGCATCTTTTATACCTGAGTAAAGCAGAAAGGTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000104450-SPAG1:NM_172218:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.182 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF0051523=TPR_1=PD(52.9=32.7)
A:
NA
C2:
PF138771=RPAP3_C=PU(86.5=67.5)
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:
TGAGGCAAAGATGGAACTGGA
R:
ACATCGGCAAATCTTTTGGTGC
Band lengths:
344-1342
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)