GgaINT0096242 @ galGal3
Intron Retention
Gene
ENSGALG00000016037 | SPAG1
Description
NA
Coordinates
chr2:134047140-134048407:+
Coord C1 exon
chr2:134047140-134047270
Coord A exon
chr2:134047271-134048300
Coord C2 exon
chr2:134048301-134048407
Length
1030 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
TACACTCTATTCTTTTATAGCTC
3' ss Score
8.99
Exon sequences
Seq C1 exon
GAGTATATCTATACTACCCACTGCAGCTGCATATAATAACAAAGCTCAAGCAGAAATCAAACTTCAGGACTGGGACAGTGCTTTGCAGGATTGTGAGAAGGTGCTAGATATGGAACCTAGCAATGTAAAAG
Seq A exon
GTAGAGTTAAATATAAATCTGTCTTTCTATGTATTATTTATTTCTAGCAAATAAAATTGTTGTTTGTATCCATTCATGTTGTTAGTTGCTTTCACTGAGTTGAGTTCCAAGTATGAAGAAGAAAGCAATTAGCTTCCCAAAGTAATTTTAACAGTATTTTGGGAGTCAGGGAAGTTTTAAGCAGTCTACTGTGTTGTTCTGTGATGGCTATTCTTAGGCAACAGTGTGGAGCTAACTTCTGTTCTTTATATGATAAGTGTAAATCCTCTTATATTTGTGCAATACATTGTTTACGTAGTACCCATACTGAAGCATTAATTACCTTAAAAGCAACATGAAAACAATGAAAGTTGCTGGTTTAATCCTTTCTTAAGGTAAAGAAGTGCAGCTAACTGTATTTGCATGTGAAAAGTGGACAAATTGGAAAAACATGAGAAGATGCTTCACAGTGAAACTCCTGAGGGGTCTGGAATACCAGTCCTGTGAGGAGCGGCTGAGGGATCTGGGTGCGATTGCTCAATCTGGAGAAGAGGAGGCTGAGAGGAGACATTATTGCTCTCTATCTAGCGATAGGACGAGAGTTCTCAAGTTCTTCCAGGGGAGGTTCAGGTTGGATATTAGGAAAAATTTCTTCTCCAAAAGAGTGGTCAGGCACTGGAATGAGCTGCCTGGGGAGATGGTGGAGTCACCGTCTCTGCAGGTGTTCAAGAAACATGTAGATGTTGCACTAAGGGACATGGTTTAGTGGGAAATATTGGTGGTAGGTGGACAGTTGGAGTGGATGATCTTGGAGGTCTTTTCCAACCTTGGTGATTCTATGATTCACAAGTCATGATTCCTGTCTCAAAAGATGTCATGAAATTAGATTGCTAAAAACAGTGAAGAGAATCAGTAATACACTCATTATGAAGTAAATGCAATAAAGTTTAGAAATTGTTCTACACTCACACTTCATATTTATAGAAAAAGAATGAATTGTTATACACTTTATGCTTTAAAAGTGTATATAATACACTCTATTCTTTTATAG
Seq C2 exon
CTCTGTTGCGCCGTGCCACTGTTTACAATCAGCTGAAGAATTACCAGGCAGCTATGAAGGATCTGAATGCAGTATTATGCATTGAACCAGAAAATGCTGTAGCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016037:ENSGALT00000025838:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PD(59.1=86.7),PF0051523=TPR_1=PU(5.9=4.4)
A:
NA
C2:
PF0051523=TPR_1=PD(91.2=86.1)
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:
GAGTATATCTATACTACCCACTGCAG
R:
CTTAGCTACAGCATTTTCTGGTTCA
Band lengths:
238-1268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]