BtaINT0139373 @ bosTau6
Intron Retention
Gene
ENSBTAG00000032544 | SPAG1
Description
sperm associated antigen 1 [Source:HGNC Symbol;Acc:HGNC:11212]
Coordinates
chr14:66320462-66322080:-
Coord C1 exon
chr14:66321916-66322080
Coord A exon
chr14:66320834-66321915
Coord C2 exon
chr14:66320462-66320833
Length
1082 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGT
5' ss Score
10.2
3' ss Seq
TAATTCTCCTCCTCCTGCAGGTG
3' ss Score
11.15
Exon sequences
Seq C1 exon
AATTATCAGAAAAGTTTAAACGATCTCAATAAAGTTCTCCTGCTAGACCCAAGTATTGTTGAGGCAAAAATGGAACTGGAAGAGGTAACCAGAATCCTTAATATTAAGGATAATACAGCATCATTCAACAAAGAAAAGGAGAGAAGGAAAATTGAGATTCAAGAG
Seq A exon
GTACGTGTATTTGATTATCTCTGAAAGTACTCTTTGGAGATCCTATACTCATATGGGATTCTGAGGTCATATTCCTATGAATTTTTAAAATTCTGTGTTTTTATCCTGGTAATCAATGAAGACATTTTAACAGATTATAATGACAAAATTTTTCTTTTGTTGTGGTAACTGGCCATTGCATTTCCACCTTGGATCTAAGAACCTGTTGGGTGTCTGCATTCTTTCTTTCTGTGCTCCCCTTCCTCCATGCCACCTGGCCTGTGGTTTTATTGCTTCCATCCAGGTTGCCCTGTGAGCCTGTGACCACTGAGCTTTGCTTCCTGATTGACCTGAAGAACCCTAGAGGACTGATTCAGTTTCAGCGTCCTGCACACCACACCCAGAGAGGTTCCTGATCAGTTCAGACCTTTCTTAGTATTTGTAAACAAGATCAGCCTCATCAGGGGTCCTGGACCACCCTAGAACCAAACCTGCCTTTGTGATTTCAGATAACCCAGTGCCTTGTGTTGTAGCCTTTAGTGAAGAATGTCAGCTCGTGGATCCCTATGTATCCATGAATGCTCATATCAACCTGTCTATCATCTTATATTTCCACTAAGAGTAGGAGGCTAATACCTGAAAGAAGCAAGGGAGTTTTTTCCCCACTAAGGAGGGAAGAAAAAAACTGTTTTTAAGAGAACTGAAAAATGTAACTTCACGTCCCTATCAAATATAAGGAAATAAGTAAATATAAAATCTGTCATGAAGAAGAGATATAAAGTTGTTATAGGTCTTCTTTTACACAGCAGCTTTTACTCATGGAAAATTATAAAAATTTCATGGTCCTATTCTCAATGTCAAAAAAAATTTTAAACCTTAAAAAAAGAATACTTTTATGAATGGATGCTTAGACTTTAAAACTTCTCTTCCTAAAAAATAAGGAGATTTTATGATTTATTGCAAGTTACATATTTTTCACTTAGAACTTGACTAAAATACAGCCCATGGTGTTTTTCAGTTCCCTCCTGTTTTAATGAAAGTAACCTGGGGGTGTGTGCAGGCACTGCTGTCTGGGTCACGGTGTAATTCTCCTCCTCCTGCAG
Seq C2 exon
GTGAGTGAAGGCCATCGGGAAGAGCCTGAGAGGACCTCGAAGGAGGTCCCCATGGATGGCCTTGCTTCTGAGAATGGGGACACCAGCAACGGGCCACAAGAGCTCTATGAGAAACTGCTGATCTCCAAGCCTAACAATGCCTACGAATTTGGTCAGGTTATAAACGCCATCAGCACGAGAAAAGATCAAGGAGCCTGCGCACACCTGCTAGCCATCACTGAACCGAAAGATTTGCCAGTGTTGTTAAGTAACAAACTTGAAGGGGACACATTCCTCCTCCTCCTCCAGTCTCTGAAAAGTCATCTTATTGATAAAGATCCCTCCTTGGTGTATCAGCATCTTTTATATCTGAGCAAAGCAGAAAGGTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000032544:ENSBTAT00000046176:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.127 A=NA C2=0.274
Domain overlap (PFAM):
C1:
PF0051523=TPR_1=PD(52.9=32.7)
A:
NA
C2:
PF138771=RPAP3_C=PU(86.5=66.9)
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:
AGTTCTCCTGCTAGACCCAAGT
R:
CAGTGATGGCTAGCAGGTGTG
Band lengths:
353-1435
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development