DreINT0158072 @ danRer10
Intron Retention
Gene
ENSDARG00000008142 | stxbp3
Description
syntaxin binding protein 3 [Source:ZFIN;Acc:ZDB-GENE-040426-2833]
Coordinates
chr23:1665886-1667288:+
Coord C1 exon
chr23:1665886-1666010
Coord A exon
chr23:1666011-1667189
Coord C2 exon
chr23:1667190-1667288
Length
1179 bp
Sequences
Splice sites
5' ss Seq
CGAGTAAGT
5' ss Score
10.15
3' ss Seq
TTTTTATGTTTTTCTCTTAGGTA
3' ss Score
11.39
Exon sequences
Seq C1 exon
GAAAAAACACCGGCGCAGCTGCTGATTGTTGACCGTGCAATGGACCCTGTTAGTCCCATTCTTCACGAGCTCACTTACCAAGCCATGGCTTATGACCTCATACCTATAAATAACAACATCTACGA
Seq A exon
GTAAGTCCCCTTTTCACCTGCTCTCTCTTCAACACTGATATCAGCTGGACACCAGTGCAGTTATGATCATGTCTTTACTCTTATTTAAAGCTTTGGATGACAGTGGCTGTGTTTACCAAACAACCAAAACTGCTAAAGAGTTATGCCGAGTTCAGACTGCGTGATTTTAGCCCCGATTTTGGCTCGCCGACAGGTTTTGAGAAATCGCAGACAAATGCCTGTAATCACAAGGAAATCACTGCTCGTGCACATGAGTGACAATCACACAGTATGAACTATCAAAGACGCGATCTCTCTCAGATCGTAATAATAAAGAGTCGCCGATGGCTGCGAGATATTTGGCGTGCTGAATATCTGGAGCTGTCAGCGATTCAAATCATGCCGTGTGAATTAAGAATTGACTGAAAATAACATCAGCGATCGCCTACAGCCAATGAGAGAGCAGCATTCACTTCTGTGTGTGTGTATACCTGCTGCAGGCCAGCGGGAGGCTGCGGGAGAAGTTAAAAGCGCTCTTTTACGGTTTATTTGGACCCACGAAATGGAGGAAAAACTAGTGGAGGTTTGACAGGACTCAGGGGCAACCGTGTCTGTTTGACGTTTCATACAGAAAGAAATTATTTTATTATTAACGTTGAGGAGAAATGGCTAATTCCCTTTAAACCCAGGTGAGCAAACATGTACATTTTCCACCCCATTAAAGGCTTCTTTCTCATTATGTAGTTAATAACAATAGATATACTACGTGTTTTTGGCTGTGAGACGTGGTTTGGACGAAGTTGTCGGCGATTCTTTCTATAGTAAAGTCATGCAATGTGAAAGCCCCTGTCACCGATCCATCTTACAGTGTAAACAAAACAGCGACGAAACGCTAGCCTAGATAGTCAAGCAGTGTGAAAACATCTGTGACACGACTACTTTGAAAATCATGCAGTCTGAACTCGGCATAAGCCTGAACAAAACAGACCCAAAGATAAGACAAAGTGTGTGCATAAACATTTAAATCTAAGTGTATACAGTAAAACTCATTTAAATGGATATTTGATTCACAATGTTTAGAGTTAATGTAAACAAATCTGTGTTGGATTAAATTCATTAATTATTGTCTAAAACTGGTGCATGTTAACATAGGCAGTGTGAAATCAGCTTTCTCCATAGTTTTTTATGTTTTTCTCTTAG
Seq C2 exon
GTATAAAATGAAGGATGGCTCCAAGAAAGAAGCTTTACTAAACGAAGATGATGAATTATGGGTCAAACTGCGGCACAGGCACATTGCTGAGGTCACTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000008142:ENSDART00000044776:9
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=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(7.5=100)
A:
NA
C2:
PF0099518=Sec1=FE(6.1=100),PF083765=NIT=PU(6.1=26.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGCTGATTGTTGACCGTG
R:
TCAGTGACCTCAGCAATGTGC
Band lengths:
208-1387
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]