DreINT0158034 @ danRer10
Intron Retention
Gene
ENSDARG00000056036 | stxbp1b
Description
syntaxin binding protein 1b [Source:ZFIN;Acc:ZDB-GENE-060531-166]
Coordinates
chr5:28386400-28389879:+
Coord C1 exon
chr5:28386400-28386548
Coord A exon
chr5:28386549-28389794
Coord C2 exon
chr5:28389795-28389879
Length
3246 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGA
5' ss Score
6.65
3' ss Seq
TATGCCTTTCTGTCTTTTAGAGA
3' ss Score
10.7
Exon sequences
Seq C1 exon
GTGTTTTCAGTGGACAAATCAGATGCCTTCCAGGATTTCTACAGCCCGTTTAAAGCTGATGTAAAGAACCAGGTGCTGGAGCGCTTAGCCGAGCAAATAGCCACCTTGTGCGCCACGCTGAAAGAGTACCCAGCTGTTAGATACAGAGG
Seq A exon
GTGAGAAAGCAAGAAGAACCACACATAAACATATCACTGTCAAATTCACATTTTCATAAACACCATCTGCTGACACACATCTGCAATGTGACTCCGAGCATCATCAGCCATCTGCAACATAACTTACACAAGCACGCAAACGCTATTTAAAAACTCTGAAATAACAGATTAGAAAGTGTCTTTAGTGTTTCATCTAGACTGGAAAAATGCTTTCACTCAGAGATTGCTAATGAAATTACAAATACCATATCACACTGGGCTGTACCGTTTGCAAAGATTAAAAAAAGAAACATTAAATGATATTAAGATAAAACATTTTGAAGTAAAAAGGAGGAAATATTGGTTTCAAGTAACTCTAGCAGGGGTGTAATGGATCAAAGTTTGGGATTCATGTGATCTGCTGATTAATTGCAATGGTTTAAAAACCAATTACACACAAGATGGTATAAAAGAGAGAGAAAAATTAGTACTTACACACCATTTTGTTTACACAAACACAAAGACCCGCATCTCAGATGCAGCGCAAGTACAGAATTTAGTATTTTTTATCATCTTCTTGAGCTTGGACGGACAAATACACACAATTATATGTCAAAATTGGTCTTCAGTGAACATAAACATTAAAAAAAGAAACTGCATTTGATTTACTATATTGAGTCTATGCATTAGCTCTTTTAAGAGTTCACATTTATTATTTATCACAAGCTTGTTTGGCATGCTGTCCCGGGAGAAAGCCCTGAGCACAAGGGATCCTCAAGCTCGGGGCTCCCTCCCGTTCGCAGAGCAAGAGGGGAGCTTGAGCTCAGGTAGATCTCAAAACTCCCCTGCGGAAGTAGCTATAATTAAACTAATTTGAGAAGGAAGGGAGCTAGACAAAGTGCCTTTTTTGCTTAATCTGTTATGTATTATGTATATCTTTGGATGGTGGGGGGAAACCCATGCGGACACAGGGAGACTATAAAAACCCCACAGAAGCACCCACCAGCCCGGCAAGGACCGTAGTGTTCTTGCTGTAGGGTTAGCTGTGCTAGCCACTTGGCTGCTGTGCCACATAATCTACTGTATGATAAAAGTAGTAAAAGGGGAAGGAAGGGGGGTTTCTTCCAGAAGAAAATGAATGTGGAATAAAGGCTGTGGTTATTTATAGTAACTTAGGAATCATATGATTGGGAGATCATGATTAGCTAATGCAAGACCAGCTGTGGTAAATCATAAGCACGTGATCCTCTCAAATTAGTTTATAAATAAACTTCACTTAAGCAAAATTTAAAGACAGTAAATCACCTCTCTTGGATGAGAAATGATTCTACATTTGATCACTTTTTTGCAACTAAATACAAGAGAACCTAAAAATACTGTTTAGGTATTGCATTTTTTTTATTTAGTTGTGATATTTGTCCAGTTTTAATAATGTTTATACACTACCTGGCAAAAGTTCGATCCCAGTTGTAAGAGTTGATATTCTAGTTGATCATTTGGAAAAGTAGCAGAAGGTAGATTTTTCTGATGAATCATCTGTTGATTTTTTCAATCATCCCAATCATCCCAAATACTGCAGAAGACCAATTGGAACCCACATGGACACAAGATTCTCACAGAAATCAGTCCAGTTTGGTGAGGGAAAAATAATGGTTTGGGTTTTCATTTAGTATGGGGGCGTGCGAGAGATCTGCATAATGGATGGCAACATCAACAGCCTGAGGTATCAAGCTTATTGTGCTGCTCATTAAATTACAAACCACAGGAGAGGGCAAACTTTTCAGCAGGACAGCAGACCCTCTCATACTTCAGCCTCCACATTAAAGTTCCTGAAATTAAAGGTCAAGGTGCTCCAGGATTGGCCAGCCCAGTCACCAGACATGAACATTAACAGACATCCCAAGTTGGAAAAAGTCATTTCCGGGGGATACAGAGTTGATTTGTGGGAGGTAGCAGATTAGTGGGTGCTCGAAGGGCGGGGTGGGGAGGGTGAGTAGTTAGCAACATATCTGTGAAGGGGGGCGTGAGTTATGCCCGACGTACCTGAAGAGCTTGTAGGGATGCAGCGGAGAGAGGGGTGTGCAACATATTTAAGGACCGGGCAGAAGACGTGCGATTTCCGGGAGATTATCATTCATTTGCGGGCATCCGGGAGTGTCTATGCATTTCAGGGATACTCTCGCAACTTCCGGGAGACTTGGGATGTCTGCATTAATGAGCATATCTGGGGTAAGATGGAGTCTGGGAGTCCTGCATGAACACTTTGCCATTTCAGATAACTTTAATAATAAGATTATTATTTAATAATAATCTTTTTCCACTGCACTATGACTGTTGAGTGACAAGACTTTTGTTTAAGCAAAGTCAGACTGTAATGTGACAGTGACGCTGGACAACGGAGTAAGGATCCATTTGCAGGTTTTATTAAACAGAATGGTCTGACAAGCAGTGGTCAATACAGGAACAAACAGAAGTGTATGGGCAATCCAGAGTCATAGTAGAAATAACAGGCGATAGGACAGAAGGCAGGCAGTATACAACATAAACAAACAAAGTCTAAACACGGAGGGCAAGGCAAGGAAAACTGCGTTGTAATGTTAACAACAGTATAACAAGACTCAGCAATAATGTATGTGTGTGTGCTGTCTTTATAGGCCATGAATCAGTCCATGAGCAGCTTCAGCTATGAGTGTCTTTGTAGGTGTGTGTGTGTGGTGCATGACTGGAACTGTAGTCCATAAAATGTAGTCCATAAAATAGCAAATTTGTAGTTTGTGTGAATGTTTTCCAGCGATCTATAGTGGTTCGATCGCTGATTGTGACACAGCCATTAAAAATCAAGGCATAATCTTATTTTATTTTGGTCGAATAAGCATAATCTAGAGGCCTTTGCGTTTCATATTAGCCACTTCTTATACCAAATGATCCACTAGTAATCAAGTTATTATTTGTTGTTCCTAAAACGTGTTGTCAGGTAGTGTATGTTATATTAGTTATGCTTGTTATTATTTAGTTTTTATGAAACAAAACTATGTTGTTGGTATTTTTTGTTGCACTCAATAAAAAAAATATCCGACCCATGTGTCAAAAACAATATGCTTCAAACCACCGAGTCTTATGATCAAGTGCAGCCCTAAACTTCAATAAACTATATTTTATTTACAACTTCCAAAAATCATTTTTACTCTGTATGTTCAGCGAGAGTTAATGGTCAGGGCTGTTGTCGTCAGGCGGCATCATGACTTATTATGCCTTTCTGTCTTTTAG
Seq C2 exon
AGAGTACAAGGACAATGCAGTCCTGGCCCAGATGCTTCAGGATAAACTGGACGGCTATAAAGCGGATGACCCCACTTTGGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000056036:ENSDART00000005638:7
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=0.207
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(8.8=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.0=100)
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]