DreINT0158007 @ danRer10
Intron Retention
Gene
ENSDARG00000001994 | stxbp1a
Description
syntaxin binding protein 1a [Source:ZFIN;Acc:ZDB-GENE-050626-106]
Coordinates
chr21:13812055-13812320:+
Coord C1 exon
chr21:13812055-13812156
Coord A exon
chr21:13812157-13812234
Coord C2 exon
chr21:13812235-13812320
Length
78 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAAT
5' ss Score
2.23
3' ss Seq
TTGCTTTTTGAATCTTGCAGGAT
3' ss Score
9.53
Exon sequences
Seq C1 exon
TCGACTCTGCGCAGAGGCAAGAAGATGGACCGTAAGGAGCGTGTGAGCGAACAGACCTACCAGCTCTCTCGCTGGACCCCGCTCATCAAGGATATCATGGAG
Seq A exon
GTCAATCCTGCTCTACAGAAACTGATGGAGAAACAGTGTATTAAGTGTGTGGTCTTACTTGCTTTTTGAATCTTGCAG
Seq C2 exon
GATGCTATCGACGACAAGCTGGACACCAAACATTATCCATATATCTCAACACGCTCTTCCTCCTCCTTCAGCACTTCTGCAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001994:ENSDART00000015629:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.142 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(5.9=100)
A:
NA
C2:
PF0099518=Sec1=FE(26.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGAGGCAAGAAGATGGACC
R:
AGTGCTGAAGGAGGAGGAAGA
Band lengths:
167-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]