GgaINT0096242 @ galGal4
Intron Retention
Gene
ENSGALG00000016037 | SPAG1
Description
sperm associated antigen 1 [Source:HGNC Symbol;Acc:HGNC:11212]
Coordinates
chr2:128185510-128186778:+
Coord C1 exon
chr2:128185510-128185640
Coord A exon
chr2:128185641-128186671
Coord C2 exon
chr2:128186672-128186778
Length
1031 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
GAGCATATCTATACTACCCACTGCAGCTGCATATAATAACAAAGCTCAAGCAGAAATCAAACTTCAGGACTGGGACAGTGCTTTGCAGGATTGTGAGAAGGTGCTAGATATGGAACCTAGCAATGTAAAAG
Seq A exon
GTAGAGTTAAATATAAATCTGTCTTTCTATGTATTATTTTATTTCTAGCAAATAAAATTGTTGTTTGTATCCATTTATGTTGTTAGTTGCTTTCACTGAGTTGAGTTCCAAGTATGAAGAAGAAAGCAATTAGCTTCCCAAAGTAATTTTAACAGTATTTTGGGAGTCAGGGAAGTTTTAAGCAGTCTACTGTGTTGTTCTGTGATGGCTATTCTTAGGCAACAGTGTGGAGCTAACTTCTGTTCTTTATATGATAAGTGTAAATCCTCTTATATTTGTGCAGTACATTGTTTACGTAGTACCCATACTGAAGCATTAATTACCTTAAAAGCAACATGAAAACAATGAAAGTTGCTGGTTTAATCCTTTCTTAAGGTAAAGAAGTGCAGCTAACTGTATTTGCATGTGAAAAGTGGACAAATTGGAAAAACATGAGAAGATGCTTCACAGTGAAACTCCTGAGGGGTCTGGAATACCAGTCCTGTGAGGAGCGGCTGAGGGATCTGGGTGGGATTGCTCAATCTGGAGAAGAGGAGGCTGAGAGGAGACATTATTGCTCTCTATCTAGCGATAGGACGAGAGTTCTCAAGTTCTTCCAGGGGAGGTTCAGGTTGGATATTAGGAAAAATTTCTTCTCCAAAAGAGTGGTCAGGCACTGGAATGAGCTGCCTGGGGAGATGGTGGAGTCACCGTCTCTGCAGGCATTCAAGAAACATGTAGATGTTGCACTAAGGGACATGGTTTAGTGGGAAATATTGGTGGTAGGTGGACAGTTGGAGTGGATGATCTTGGAGGTCTTTTCCAACCTTGGTGATTCTATGATTCACAAGTCATGATTCCTGTCTCAAAAGATGTCATGAAATTAGATTGCTAAAAACAATGAAGAGGATCAGTAATACACTCATTATGAAGTAAATGCAATAAAGTTTAGAAATTGTTCTACACTCACACTTCATATTTATAGAAAAAGAATGAATTGTTATACACTTTATGCTTTAAAAGTGTATATAATACACTCTATTCTTTTATAG
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:
GAGCATATCTATACTACCCACTGCA
R:
CTTAGCTACAGCATTTTCTGGTTCA
Band lengths:
238-1269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]