GgaINT0096251 @ galGal3
Intron Retention
Gene
ENSGALG00000016037 | SPAG1
Description
NA
Coordinates
chr2:134069469-134071122:+
Coord C1 exon
chr2:134069469-134069610
Coord A exon
chr2:134069611-134070989
Coord C2 exon
chr2:134070990-134071122
Length
1379 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
CAGTGTATTCTGTTTTTCTGTGT
3' ss Score
-0.85
Exon sequences
Seq C1 exon
GTGAGAAAGCTGAGGAAAAGTTCAGGACATTAAAAAATGAAGGGAATGATTTTGTGAAGAAGGGTAAATATGATGAAGCTGTAAATAAATACAGTGAATGCTTGAAGTTAAATACCAAGGACTGCACAATATACACTAACAG
Seq A exon
GTAACGATCTAAAATCTAACCTCACTTTGTGGGATAATAATGCTTACGTTTTTACACTGAAAATAAGGATTCTGCATCACTTCAACCACTTTTGTAAAGGAAGGCATTTTTTTTTCCACTTGATGAGCATTTCTAATAACAAAATTGATTTTTGGTTAAACCACGTTGTCTTCCAAGCAGAGCAAGTATTAATGTCAGTGATATCTATACAAAGATTCTAAGATGTATGTAAAGTAACCAAGATAAAAGTTACAATTAACATAGCATTTTTCAGAATTTTCTGAGAATACTGATTTGATATTAATTAAAAACTAACGTGCAGTTGCAGTATACCAAATACAAAGAATAATAATTTAGAGAAAATGTACGTACTGAAAAGATAGAAACAGAAACATAGTCATACAGCAGCATTATTTTAAAGGTTGACCTCATTCTTTGGCATAATTCTTTGTGCTGTAATCCCATCAGCTTCCTCAAACTAAGAAGGATTTTACTAGGCCAGTACCTGAATAGGAGACTTCCAAGTAATAATTAGGTACAGAAAATGATATTGCTTATTTAATCTAGTGCACTTTTTTACCCAGAGTGGTTGCATAGATATATGGGATTATATATACATCTCTATACTATCTTATAAGCTAAAATAGGAATCCACCANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCTACTGCACTTTTTTACCCAGAGTGGTTGCATAGAATCTGTATTATATATACATCTCTATACTATCTTATTAAGCTAAAATAGGCTCTGCTTTTAAAGTACTTATATACCTGCATAACTTCAAGTATTATTCATACCTGAATTTTAACTGGAATGGGCTCTTAAGTCCATCCAGTGATGTCATTAATACTTACTGATTTTGATTGATGTATTTAAGGAAGAAAAGATGTACTGTAAGGAAAAAAAAACAGTAGCATATTGATATTGTGTGAAATACTGCTGTAAACATTAAAGAGAGTCAGAGATGCTGAGGGCATTACGGAACACTAGAATTTACTTATATTACAGTGTATTCTGTTTTTCTG
Seq C2 exon
TGTTAGAGCTCTCTGTTACTTGAAACTGCATAAATATGAAGAGGCTAAGCAAGATTGTGATCATGTTCTTCAAATAGAAGATTGTAATATTAAAGCTTTTTACAGAAGAGCACTAGCATACAAAGGATTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016037:ENSGALT00000025838:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PU(60.0=87.5)
A:
NA
C2:
PF134141=TPR_11=PD(38.6=60.0),PF0051523=TPR_1=PU(41.2=31.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGCTGAGGAAAAGTTCAGGACA
R:
CTGTAATCCTTTGTATGCTAGTGCT
Band lengths:
270-1649
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]