GgaINT0096240 @ galGal4
Intron Retention
Gene
ENSGALG00000016037 | SPAG1
Description
sperm associated antigen 1 [Source:HGNC Symbol;Acc:HGNC:11212]
Coordinates
chr2:128182511-128183209:+
Coord C1 exon
chr2:128182511-128182629
Coord A exon
chr2:128182630-128183103
Coord C2 exon
chr2:128183104-128183209
Length
474 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATG
5' ss Score
5.67
3' ss Seq
CTATAAATATTTTCTTATAGGCA
3' ss Score
7.79
Exon sequences
Seq C1 exon
GTTTGATGTGGAAAAGGAGTGTTCTAAAATTGATGAAAGCAGTGAAGAAAACAACTCAAAAGCAAGATTCATTAGTAGACCACCTCCACCTCTAATTGAAAAGCAAGTAAACACAACTG
Seq A exon
GTAATGTCCTAGAAGCATATTTTTTTATTTTCTTTGATTGTAGTACTCTGTTGTTGAATGTGAATACAAATCAAATTGTATTATAGAGATGTCTTTATTTTTCAGCACCTAGAGATGCTAAAATTTCATAGAAGTTCATGATTAAAAACATAATCTTGGTTTTAATCATTGCTTATAATGTTTTATTGTGTTTGGGTTGAGAGAGCTAAGTAAAAATGTAAAGCACACTTCTGCTACTGTAATCCAGTGCTAGGGGTTAACCAATAACCATCACCTCGTATTCAGAATTTTATGCCTTATGAGAAGGATCTAGGTTGTTATTATAGAAATTATAAGGCAGTTTTGTCTTTTTATGATCAATGTTCTTTTAAAAATAATATAAGGAATATAACATTCAAAGTATTTTAGCTGACAATATTTTGATTGCATCTATGCAGACTGGTGGTTTTAACAACTATAAATATTTTCTTATAG
Seq C2 exon
GCATGACAAAGAAAGAGAAAATCTTCATTGCTACTCGGGAAAAAGAAAAGGGTAATGAAGCCTTTGCTAGTGGAGATTATGTGGAAGCAGTGACATATTACGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016037:ENSGALT00000025838:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.683 A=NA C2=0.111
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134141=TPR_11=PU(39.4=72.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
TGATGTGGAAAAGGAGTGTTCT
R:
CGAGCGTAATATGTCACTGCT
Band lengths:
222-696
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]