DreINT0158015 @ danRer10
Intron Retention
Gene
ENSDARG00000001994 | stxbp1a
Description
syntaxin binding protein 1a [Source:ZFIN;Acc:ZDB-GENE-050626-106]
Coordinates
chr21:13798989-13800219:+
Coord C1 exon
chr21:13798989-13799137
Coord A exon
chr21:13799138-13800134
Coord C2 exon
chr21:13800135-13800219
Length
997 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
GATTCTCTGTGCACATGCAGGGA
3' ss Score
6.6
Exon sequences
Seq C1 exon
GTGTTTTCTTTGGACAACCCTGACGCCTTCCAGAGTTTCTACAGCCCTCATAAGACACAGCTGAAGAACCCTGTGATGGAACGGCTGGCAGAGCAGCTGGCAACTCTGTGTGCCACACTGAAGGAGTACCCGGCCGTCAGATACAGAGG
Seq A exon
GTGAGCCACGGTCAACACAGCCATTTACACATTTAACAGTAGCTTTTGTTCAAAAAGACTTACGATTGAGGCCACAGAGTTATTACAACACACTTCTTACAACATATGACCTAATGATTCTAATGATGCAGTTCCACATAAATCTACCACTCAAACGTTTGGGATCAGTAGGATTTTTGCTCACACTTTATTTGAACGTAAAATTCACTCTATTAACAAAGCATTAATGAAGACTATAAACTTAATAAATTACTGATTTGCTGCTAATTAATAGTGAGGTAGTAGTTGGGTTTAGGGGGTAGCAATTTTAGCTTAGCTTAGCATAGATCAATGAATCGGATTAGACCGTTAGCATCTATTCATATCGGCCTGAAAACAGCTAAATTTCTTTTTCATTGGTCATAGCACCCAATAAAACTAAGGAGAGTCAGGCTTCGGACCAATCAGCGCAGATTAGCTTTTTGCTAAGAAGGGGTTTGGGAATAAATGACTTTTAACTAACTTTAACTAACTTTTATTTTAGTTTAGCATAGATCATTGAATTGGATTAGACCGTTAGCATCTATCCATATTGGCCTGAAACAGCAAAATGTATCTTTTATCCGTGTTAGTACAAAATAAAACTTCATAAGAGTCAAGCTTCAAATGTGAAAATGATGGAAACTCGTTGAGCGAGACACTAATGGTCTAATCCATTTCAATGATCTATGCTAAGCTAAGCTAAAAATTCTCCCGTTAGACCCAGAGATTCACTAAGATCAAGTGTTAACTCTTGAAATGAGCCCATTTTCATAAAAATGAGGAGTGCTCCTTAAAAACATGTGGAAATCTTATACTGATCCCAGTTCGGTAGCGTATACAAGTGTATTTATTAAACAAACACACACTTACAGCAGGAATGAGTGGATAAGACAGATGTCCAGTAGTCTCGGATCATAAGATCTGTCTTTGCTTTTGTCTGTCTGCTTTAATGCTGTGATTCTCTGTGCACATGCAG
Seq C2 exon
GGAGTATAAAGATAACGCCACTCTGGCTCAGTTGCTTCAGGACAAACTGGACGCCTACAAGGCAGATGATCCTACAATGGGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001994:ENSDART00000015629:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.310
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTTCTTTGGACAACCCTGACG
R:
CCCCCATTGTAGGATCATCTGC
Band lengths:
230-1227
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]