DreINT0158017 @ danRer10
Intron Retention
Gene
ENSDARG00000001994 | stxbp1a
Description
syntaxin binding protein 1a [Source:ZFIN;Acc:ZDB-GENE-050626-106]
Coordinates
chr21:13801593-13803167:+
Coord C1 exon
chr21:13801593-13801723
Coord A exon
chr21:13801724-13803059
Coord C2 exon
chr21:13803060-13803167
Length
1336 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
GTTTGCTTTGTACCTGGTAGGTA
3' ss Score
6.95
Exon sequences
Seq C1 exon
GGTCCAGATAAGGCTCGCTCTCAGCTCATTATTCTGGACCGAGGATTTGACCCCGTCTCTCCTGTCCTGCATGAGCTCACCTTCCAGGCTATGGCCTACGACCTTCTGCCCATTGAGAATGATGTCTACAA
Seq A exon
GTAAGTAAAATAAAATAAAAAAATGTAATAGAATACAAAATAATGATATAATATAATACAATGTAAAAAGAGATAATGATTAGAATATAAATTGTATTAAGTTATTTTAAAACAAATAATGTGCATCATTACAAATAGATTATTAGTTAACCAAGAACTAAATACAGTACACGTTTTACATTTTTTAAATTTGTAAATATAATTACATAAAAAGTAAATAAAATAAAATTGGATATACTGTTAGCATCTATCCAAATCAGCCTGAAATAGCAAAACAAAATTCTTTCATTGATCTTAGTACTCAATGAAACTACAGAAGAGCCAAGCTTTAAATATGAAAATGATGGAAACTCTAATGGTCTAATCCGTTTCAGTGATCTATGCTAAGCTAAGCTAAACGTTCTCCTGCCAGACCCAGAGATCAGCTAAATAGATTAAAAGAGGTATTTAACTTTTGAAATGAGCCTGTTTTCATAATAAAGTGTGTAAGAGTGTTTCTTGAAAAAACAAAATGAAAAAGAATCCTATACTGATCCCAAATCGTTAGTGTATATAACTATTTTTTTTTAATTACACATATTTTTTATATTTATTATACGCCTGGTTTTAGACCACATTTCATTAGTATGGTGTATGCCTCCTTTGCAGCCAATACAGCTTCAATTCATCTTGAAAATTACAAGTCCTGCTCAGTGGCCAGAGGGATTTTGAGCCATTCTTCTTGCAGAATAGAGGCCATGAAACTATGTGATGCTGGTGGAGGAACAAGCTTCCTGACTCTAAAACACCTCAAAGTGGCTCAATAATAGTAAGGTCTGGTGATTGTGCAGGCCAGACCACTCAGCCACCAGTCTTGCTGTGTGTATTGGTGCATTATCACCATGATACATGGCACATTGTCCTCCAGAATGATATTCAGTATAGGGATTGCCATGATATTGCAATCCATCACTGATCCACTGCCATGTTTTACTTTGTGCATGCAACAGTGGTGGTACGCTTCTTTGGGGCTTTTCCACACCTTAAATCTTTCAGATACTCTGGCAGATTATTTATCTATTTATATAGATATCTATTTATATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATATATATATATATATATATATATATATATATATATATATATATATATATATATATAATAACATTAGGAATAATATTCTGATCATTAGTCAAATGAATGCGTTTGCTTTGTACCTGGTAG
Seq C2 exon
GTATGACACCAGTGGAATAGGAGACTCTCGTGAGAAGGAGGTGCTCCTTCATGAAGATGATGATCTCTGGGTTGCCCTACGACACAAACATATCGCTGAGGTCTCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001994:ENSDART00000015629:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.108
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(7.7=100),PF140711=YlbD_coat=PU(4.4=11.4)
A:
NA
C2:
PF0099518=Sec1=FE(6.5=100),PF140711=YlbD_coat=FE(31.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCCAGATAAGGCTCGCTCT
R:
TGAGAGACCTCAGCGATATGT
Band lengths:
239-1575
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]