GgaINT1026752 @ galGal4
Intron Retention
Gene
ENSGALG00000007196 | STXBP1
Description
syntaxin binding protein 1 [Source:HGNC Symbol;Acc:HGNC:11444]
Coordinates
chr17:2444874-2445965:+
Coord C1 exon
chr17:2444874-2445028
Coord A exon
chr17:2445029-2445822
Coord C2 exon
chr17:2445823-2445965
Length
794 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
CCTGCTCTGTTCTCCCGCAGGTT
3' ss Score
13.43
Exon sequences
Seq C1 exon
TGCCCGCTACGGCCACTGGCACAAGAACAAGGCCCCCGGCGAGTACCGCAGCGGCCCCCGCCTCATCATCTTCATCCTGGGGGGGGTGAGCATGAACGAGATGCGTTGCGCCTACGAGGTGACGCAAGCCAGCGGCAAATGGGAGGTGCTAATAG
Seq A exon
GTGAGTGGGGGCCCTGCCCTGCTCCCCGCTGCTCATCCCACTCTCACCCTGCAGCCTTCAGGTGACCATGTGAGCAGGGCAGGGGGGTCCTGCTGGTGGCACCCCTCCCACCCCGGGGACATGGAGCGCCCCCCGTGCTGCCCCTCTCTTTGCTCCCTTTGCGTCTCCCTGGTGAGTTTTGCTGCCTGAAGCACCGGCAGAGCTGGGGGAGGAAGAGGGCATTTTGCAGCTTGAGTTGCTCCTGTTGCAGGAGCTGTTGTGTGCACGTCATGGGGGTTGTTGCAAGGAGAAATGGGTGTACAAGCTGGCACACCAGCCACGGTGTGTGCTGTGTGTGCAGTTGGGCACGCACCGTATGCAGCAGGCTGTGCACACCTGTGCAACACAGCACGCACCACGTGTACAGCAGGGCATGCAATGGGGCATGCAGGATGTGCAGTGCACACAGTGCCCTCCCACCACCCTCTGCCCAGCACTGCAGGTGCACTCATGGCTTATGCATCCAGCACCCTAACACAGCAGGGCCAGGGGTGGGGGTACCCCCCAGACCCCAAAGGGGAGCAGGACAGACCCAGGCCAGGCGGGGGCAGCCCCCATCCATGCGTCAACCCCTTCTGCATCTCACCCATCTCATCCCACACCGCTCCGCGACCGACCCTCCGTGCTCTGGGTGGGCAGCGCATCCTTTTGTCTGCACCCCAAAAACAGAACCCACACCCGAGCCCCCCGGCCCGGTGCATGCTGCTCCCCCCCGGGGCACGGCCGGGCCGTCAGCCTGCTCTGTTCTCCCGCAG
Seq C2 exon
GTTCTACTCACATTCTCACTCCCACCAAATTTCTCATGGACCTGAGGCACCCCGACTTCAGGGACTCCACTAGGGTCTCATTTGAGGATCAGGCTCCAGCAATGGAGTGAGCCCAAGCAACCAAGTAAGGCAGCCAGCTAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007196:ENSGALT00000011649:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.167
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(9.4=100)
A:
NA
C2:
PF0099518=Sec1=PD(2.5=37.8)
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:
CCACTGGCACAAGAACAAGGC
R:
CGTTAGCTGGCTGCCTTACTT
Band lengths:
286-1080
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]