GgaINT1026753 @ galGal4
Intron Retention
Gene
ENSGALG00000002001 | STXBP3
Description
syntaxin-binding protein 3 [Source:RefSeq peptide;Acc:NP_001073202]
Coordinates
chr8:1276630-1278294:+
Coord C1 exon
chr8:1276630-1276754
Coord A exon
chr8:1276755-1278198
Coord C2 exon
chr8:1278199-1278294
Length
1444 bp
Sequences
Splice sites
5' ss Seq
CAAGCAAGT
5' ss Score
2.32
3' ss Seq
CCTGAATGTTCTTTTTGAAGATA
3' ss Score
6.02
Exon sequences
Seq C1 exon
GCTAAAACCCACTCACAACTAATAATAATCGATCGAGGCTTTGACCCAGTATCAACTGTCCTTCATGAACTCACGTTCCAGGCAATGGCGTATGATCTACTACCAATTGAAAATGAAACTTACAA
Seq A exon
GCAAGTACCTTTTTAATTTAAGCACTTCTTTCTTGATCATATCTATGGAGTTGTTTAGCTGAATTGCAACGTAAGTGTTTTTAGCTGCTTATGGTATGTAGGGATTGCTTTGGTAAGTTAATAGTTTGCCTCTTGGCTTTTTAACTTGGTTTTACTAGCTTCGCTATTAAGGTAGGACTACATTAACACTTTTGCTCAGCTTGATGCTAACAAATAACGTGGATTTTTTTTTTAGTTGTCTGCTTAAGTAAATCTGTGTTGTCGGTTGTTTTATTTTTATTTAAAAAACACATCTGAACTTAATACTAGACTTGAATCAAAGCTCTGATAGTGCACAGATTGATTCCAGACTGCCTTGCTTGGTGCAGGAAGGCAGACAAGGCCACTAAGAAGACAAGAACCTTAGAGAAAAAGCTCAATTTTTTTCAGGAAGTCTCACTTTTATAGCTCCAGTCATCTAATTTGTATAGTGGATGCAAATTTACATGTTTCTACCTGAAATGGATGTTTAAGTAAGCTCTCTTCAGTTTAATTATGTTTTCTTTTTTATTATTAATTGGAATAGTGACACTGTTTCAGTGCTTTGCTGATAACTTGTCCTGACACCGAAGATATTTCAGTCTTTACTTTCTGATCAGCCACTATAGCAAATCAGTCTATGTACTCACTGTTCAATTAAGCAGACAGGAGTGTTTATTTTATATGAATTTAGTGTTTCTGACAATGAGTTATGTGTATTTGGAATGTAGCGGAGGGTGTTTTCTAGGTAAAGTCACTATCTGACTTGCATAATTAATCTTGTAACTTTTCTCTTACTTTACTGCATTCTGGTTTCACGCCTTATCTATGTGAGTTTCTGTAACTGAAAGTGTTTTGTGATGTGATGGTTCATTCCTTTGTTCTGTATGTTTATGTTTGTAGAAAAGTAACAGTAGTTTTATGATGTTTTGAAGCATGTTACTTGTATAGGTGAAGTAGTTTGTACTTAATTTACTCTGCAGATGAATGGGACTTCAATTTTCCTTCAGGTTTAGAGTATATTTTATATTTGGTACGAAAAGCTGCACGTCTTCATACGTGTTATGTCACAACCAAATTTGTTTTAGAAGCTGATGAGAAATTGAAGTGCACGTAAATGTATCATTGACACTGTAGTTGCTGTTGGTAAAAAAAAAAAAAAAGAAATCCAGAAGATATTGCCTTAAAGAGCCATTCTAAAATTCATATATTCTTCTATATTCTAATATACTATCTGTAAAATATAAATTTAGTTCTGTTTCATACCATAGCTTGATTTTTGAAGTGAAAACTAGTGTATGTTACTGTTATTACCATGTGTGTTTCTTAAACTATAATTACTCATACTCCCTAGAAAGTTAGAAAAATGAAGAAATGCAGTAAAGAGTAGGAAACTAAAAAATCAACCTGAATGTTCTTTTTGAAG
Seq C2 exon
ATACAAAGCAGATGGGAAGGACAAGGAAGCAATTCTGGAAGAAGATGATGAGCTTTGGGTGAAGATTCGGCACAAGCATATTGCAGATGTAATAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002001:ENSGALT00000003116:9
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=0.312
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(16.5=100)
A:
NA
C2:
PF0099518=Sec1=PD(2.4=37.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTAAAACCCACTCACAACTAAT
R:
CATCTGCAATATGCTTGTGCCG
Band lengths:
214-1658
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]