GgaINT0036878 @ galGal4
Intron Retention
Gene
ENSGALG00000002001 | STXBP3
Description
syntaxin-binding protein 3 [Source:RefSeq peptide;Acc:NP_001073202]
Coordinates
chr8:1268556-1270477:+
Coord C1 exon
chr8:1268556-1268637
Coord A exon
chr8:1268638-1270400
Coord C2 exon
chr8:1270401-1270477
Length
1763 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TAGTATTTCTTATGTTGTAGTGG
3' ss Score
4.8
Exon sequences
Seq C1 exon
GTAATTCTTTTAGATGATTACACTACTAAATTACTGTCACTGTGCTGCAAAATGACTGATCTACTGGCAGAAGGTATCACAG
Seq A exon
GTAAGCATAATTCTTGGCAATACGTGGATCGCCATGCCCTGAGAAGAAGGGGAAGAATTGAGTTGATGGTAACCTTACAAGAAATTGTTTTATTTTGGGGGTTGAAGGCAGGTAACTGTGGGGTACTAGACTGACAGTTTTGAGGCTTTTAGAATAATCAGTTAATTTCAATTAATCTGTTTGAATAAAAAATGAAACACTTCTCTGCCTAGAATCTAAAAATGTTTATGTAATAATTGAAGATTGATTTAAGGCTCGTGGTTATTGATGTGGTTTACTTTGCTTGCTAACATCAAGAAGATGAGACTGTTATCTGTGAAGTAGTGGATTTCTTAAGGATGTTATCTGTCAAGTGAAATGAATACAAGATCTCAGTAAAGAATTAAGTGAACTATGCCAAAGCATAAAAGAATAGGTGAACTGCTCTCTGTTTGTCATAATGTGTTCTGCTAGTGAGTATTATCTGCTGCTTTTAATGCATTCCTGCTCACGAGCAGCTGAATTAAAATGCGAAGGTATAGAAACATAAGTGCTAAAGAGAGAATGAAAACAGGAGACAAGACAAATTCATGAGTGATATTTGCAAGCAAGTAGATTCAGTGTAGAGGTGAGAATTCAAATTTGAGTTATATGTTGCACAGAAATCATATGGCTTCTCTACGAAATGAGAGCTCTCCATAATTAAGTGTAAAACTAAATGATATCAATTATTACTTTACCAATAATAAAACTGTCAGCAGTATGAGAAGTAACTCTCAGTTTTCCCTGTAGCTTGGGAGTAATTTCTAGTAGATAACTTTTCATGTACTGGAGTCACACAGTTATTTTGCACATTAGTAGTAAGGTTGCTTAAAGAAGAGACTGCATGATTAAATGCATAATTTATAACCTGAAGATATGGAAGTTAATTCAGTGTTGTTCTTCACAAGGCTTTTTTTCTTGTTCCACGTATTCTATGTGTGTATTTCTTGTACAAGATTGATAGCAAAGCTGTCTACGCTTCTAAGTGTATTTTAGTCATGAGTTTTACCTATCCTTTGTGAGAAGCTTTCAGTGGGCTTGTGTTGTGTTTATCAGTATGAAATATGTCCTTTTCATTGAATACACTGTTGAAAAAACCTATCTTTTGACATCTGAACATCTGATGTTTAGTCTCTTTTACTCAAAATTACTGAGCGATGTGAACCTCTGTGTTTTCAGTCTGGTGTACTGCACCACTGTATACAGTAAGGATTTGTTTAAACAGAAAAACAGGAGATGAATGGAAGAGTTGATTTGCTGAAAATGTGTCATTTGTGCCTGCAATTACACTGAAACTAAGTACACAGGAAATGGGCAAACAAAGTACAATAGAGGCTAGAGTCCAAGGTGATGCTTGCGTGGTTTCATTTTCCTCCTCCTTTGAACTCCAAGGAGAAGAACCTTGATGAGGCAGTTCTCTTTAAAGTAATTCATACTGTACCCTGTAGTTTGAGCATCCTTTTGTTGTCCTGCTTTTCTGGGGCATTTAAGATATACCCAGTCCTAAACCTGAGTTGACAGGGTAAGTGCTGTAAAGGTTTATGGTAACTTGTATTTAAAATGGTAAATAAAAAATAAGTTGATAAAAATCAGGGCTCTCTAGGCTGAGGATGATTACTTGACAGGAAATTTGTGGATAATGTGGGGGATGTGATTTTGATTACCTTATATTAAAATGTGTGTTTTTTCTTACGGTTGCATGAAGTTCTTAATATCGAAATGTAGTATTTCTTATGTTGTAG
Seq C2 exon
TGGTGGAGAACGTGTATAAAAACAGAGAGCCTGTTCCACACATGAAAGCAATATATTTCATAACTCCAACCAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002001:ENSGALT00000003116:3
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:
PF0099518=Sec1=FE(10.9=100)
A:
NA
C2:
PF0099518=Sec1=FE(10.1=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]