DreINT0158019 @ danRer10
Intron Retention
Gene
ENSDARG00000056036 | stxbp1b
Description
syntaxin binding protein 1b [Source:ZFIN;Acc:ZDB-GENE-060531-166]
Coordinates
chr5:28390370-28392422:+
Coord C1 exon
chr5:28390370-28390477
Coord A exon
chr5:28390478-28392361
Coord C2 exon
chr5:28392362-28392422
Length
1884 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGT
5' ss Score
10.16
3' ss Seq
GTGTATTTATGTGCACTTAGAGC
3' ss Score
6.04
Exon sequences
Seq C1 exon
GTATGAAACCAGTGGTATGGGTGACACTCGTATGAAAGAGGTGCTTCTGGATGAAGATGATGACCTTTGGATGACACTGAGACATAAACACATAGCAGAGGTGTCCAC
Seq A exon
GTAAGTCTGGCCCGTTTATTATATACTGTACTGCATAAACTACTGTTCATAAGTTTGACGATAGTAAGATTTCTAATGCTTACTACACTGAAAAAATTATTTTGCTGCTTTTTCAAACTACTTTTTTAAAATGCAAACACAATTTTTGAGATTCTTGAGGTTTTTTTATGTTCAATCAACTTAAAATTGTTTACTTAATTTGTGTTGGTACAGCATGAGCGAATTGTGAGGAACCCTACATTTTTTACAGTGTGAGGCCATCAAGGCCCTTTAACCCCTCATAGGGCACTCATTTAAACACTCATTGGAAAAGCCCTGGAGTGTTACTGGGGGTTATGGATGCAACGATTAACAATTTTTACTATTAATTCGTCACAGTTAATTAATCGTAAACGATTTTCAACAAGACTGCGTTTTTGAACAGAACAAAACTGCTTCAACTAAACATAATGATGTCAATTGTGCGCTAGTTTTAAGTTCCATGCTTGTACACTTAGGATTAACTATGGCTGAGGCTATTAACCTAAGGGCTGTGCACATATCGCGTCTTTTGCTGGCAAGTTCGTTATTTCCTATGGTGGCGTGCGCATATTGAGTGCGATGCGCTTGCACTTCCAGGCACACCTAGTTGAAAACATGCCTCAAGCGCATAGTGAGTCACATAACAAGAATTGACCAATCAGCTGCATACTTTGTATGGAATGTACACATTTCTACTCACATTTCTACCCATTTGTACTATTTAAAAAGGAAATACTTGGCTATCCATTAATCCATTTATTCACATCTGCAGCTGATATCAGAGCAGCAGAAGCCGTTACTAATTTGCAAGTCGTAATTTTAGAGGTAGTGTTTGAATGATTCTCTATCGTAATGCCTAAAATGATGACAAAACAGGTGATTTTAAAATTATAAGGCTGAACGATATGAAATTCCATCGGTCTAGAGACATTTCCTACTATTTCTCTGTTCCAATCGAGATATCACAATAATTAACCCCAAAAAACAAAAGCAGCGGAATCACTAACTTACTAGATTACTGTTGTGTTTGCGATAAGGAAAAACGCTAAACACATGCGGGCATTTCTTCTCACTTTCTTTTTACTGAACTAGTCTGCAGTAATGAAACAGGATACTCATTAGAAACAAACAGATGCCCTACCAAAAAGTAACTCAGGGTTGTACAAAGAGTAGCCAACACAAAATACATACATTCCTGACATGTGAGTCCCATCTCACACTCAATACCCTACAATTACTGTGATATAAATACAGCACTGCAACGTAAAAAAGATAGATTGATTTAGAATGTTACTCGCCAATTGTATAATGTTTTGTTCAGCTGTAGTTTGAAAATATACCAATCTTTTCTCCTCTAAGGGCTTATTGTGTGGTCTGTCGCCATCTTGTGGATGGACAACATCAACTATCTTTGCTCTGCTCAATGACAGGCTGATGGATGCCGACGTGCTGTTTCTCAGAAATGTTAAATATTTAAAATAGGCACTATCCTTATAAACAAACTGCATAGTTATCCAACAGCTGCAATATTTGTCAAACTGTGGTGAGTTTATTGATGTGCTGTCACTCTGTGGGCAGAGTAATACGGAAGGGTGAAGAGGCTGTTTTGATATTGCAGAATATAGCATTGCTATCAGGCATTCAGATTCTAGAACCAGACAGAACTGTTGTATAATATACATTATATACATATAAAAGTGTCCTAGCAAAAAATAAATAAATAAATAAATAAATAAAAAAACATTAACGTTTAATCTAACTAATGATGAATACACTGAAAATCAAAATATTGTTTGCCAAAATATTATCATAACCTAATACAAATTATTAAACTACAACATTTGTGTATTTATGTGCACTTAG
Seq C2 exon
AGCTGTGACTAAATCGTTAAAGGACTTCTCCGCAAGCAAAAAGATGAACACAGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000056036:ENSDART00000005638:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.143
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(6.5=100),PF140711=YlbD_coat=PU(28.0=75.7)
A:
NA
C2:
PF0099518=Sec1=FE(3.6=100),PF140711=YlbD_coat=FE(20.0=100),PF0396210=Mnd1=PU(11.3=71.4)
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:
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]