BtaINT0139374 @ bosTau6
Intron Retention
Gene
ENSBTAG00000032544 | SPAG1
Description
sperm associated antigen 1 [Source:HGNC Symbol;Acc:HGNC:11212]
Coordinates
chr14:66320226-66320833:-
Coord C1 exon
chr14:66320462-66320833
Coord A exon
chr14:66320358-66320461
Coord C2 exon
chr14:66320226-66320357
Length
104 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
AATTTTTTCCCTTATTGCAGATG
3' ss Score
10.11
Exon sequences
Seq C1 exon
GTGAGTGAAGGCCATCGGGAAGAGCCTGAGAGGACCTCGAAGGAGGTCCCCATGGATGGCCTTGCTTCTGAGAATGGGGACACCAGCAACGGGCCACAAGAGCTCTATGAGAAACTGCTGATCTCCAAGCCTAACAATGCCTACGAATTTGGTCAGGTTATAAACGCCATCAGCACGAGAAAAGATCAAGGAGCCTGCGCACACCTGCTAGCCATCACTGAACCGAAAGATTTGCCAGTGTTGTTAAGTAACAAACTTGAAGGGGACACATTCCTCCTCCTCCTCCAGTCTCTGAAAAGTCATCTTATTGATAAAGATCCCTCCTTGGTGTATCAGCATCTTTTATATCTGAGCAAAGCAGAAAGGTTTAAG
Seq A exon
GTAAGTGGCAAAAATATCTCATTCGTGGAGATAGATTCTTTTAGGGTTCTTATAACTTTAAAATGTTCATTTATAAGCTGATATAATTTTTTCCCTTATTGCAG
Seq C2 exon
ATGATGTTGACACTAATTAGCAAAGGCCAAAAGGAGCAGATTAAGCAGCTCTTTGATGACCTCTCAGATGCACCCAACAAACATTTTACTTTAGAAGATGTACAAGCCCTCAAAAGGGACTATGATCTTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000032544:ENSBTAT00000046176:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.274 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138771=RPAP3_C=PU(86.5=66.9)
A:
NA
C2:
PF138771=RPAP3_C=PD(11.5=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACACCTGCTAGCCATCACTG
R:
TGGGTGCATCTGAGAGGTCAT
Band lengths:
249-353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development