RnoINT0145617 @ rn6
Intron Retention
Gene
ENSRNOG00000015420 | Stxbp1
Description
syntaxin binding protein 1 [Source:RGD Symbol;Acc:3785]
Coordinates
chr3:11841805-11843008:-
Coord C1 exon
chr3:11842901-11843008
Coord A exon
chr3:11841866-11842900
Coord C2 exon
chr3:11841805-11841865
Length
1035 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGA
5' ss Score
5.9
3' ss Seq
CTGCCTCCCTCATTTTGCAGGGA
3' ss Score
12.46
Exon sequences
Seq C1 exon
GTATGAGACCAGCGGCATTGGAGAGGCGAGGGTGAAGGAGGTGCTCCTGGATGAGGACGATGACCTGTGGATTGCACTGCGACACAAGCACATCGCAGAGGTGTCCCA
Seq A exon
GTAAGAACTCTGCCGACCCTTCCCCAGGGTGGGCCCTTAACTCAGCAACCTGGGGCGTGAGCTCATCCCCTTGGCAAAGTTGCCAACACACTAGCCAGGACGGGCAGGTCCCTCCTGTTACCTGAATGTGCGCTTCTCCAGCTTCACCAACTCAAAAAACCCACCCCTCGCCCGGCTGTGACGCACACCTTTAACCCCAGCATTCAGGAGACAGAGGCAGGAGGGTCTCAGAGCTGCAGGACAGCCTGGTCTACAGAGAAAGTTCCAGGACAGCCAGGACTGCACAGAGAAACCCTGTCTCAAAAAAGAAAGAAAGAAAAAGAAAAAAAGGAAAGAAAGAAAAGGAAAGAAAGAAAGTAAAGAAAAAGAGAAAAAATATTGATCCATGGGCTTGGGAAGGGCTGTAGTTGAGAGGTAAAGCCCTTTCCTGACCTTGACAAGGTCCTAGATTCAACCACCAGCTCCACAAAAATAATACTTAATTAGGGGTGGTTTCGTTCTTGTCGTGTTTTGTTGTTGTTTTTGTTTGTTTGTTTTTGAGGCAGGTTTCTCTGTGTAGCCCTATCTGTCCTGGAACTCACTCTGTAGATCAGGCTGGCCTCAAACTCAAAGATTTCCCCTACCTCTGTTGGGATTAAAGGAACGTGCCACCACAGCAGATATTGGGGTGGAAATACTGACCCATATTTCCTGCTGGAAAATTTATTTATCATTTACTTACATACTACATATATTTGTATTTTCCAAACACAAAACACAAGTGTTTCAGTTTGTGTGCATTTGGAAAGGAAGAAAAAAAATAAGCACAAGTGTCAGTCCAGTACTGTCCCCTTTGTCCTGGAATCACCGGCATACGCCGTCCTGGAGGCCAGTGATTTAGTGTCAGTCAGAACAGTATGTGTCCTTCACTTTAAATGCAAACCTCAGTGGGAAGAGAATTGCCACTTAGTCCCAAGGAAGGCTCCCAGGGCTTCAGTGGTCTCTGCAGAGGCCATGGGCACTGTGTTGAGCATGGCTGCCTCCCTCATTTTGCAG
Seq C2 exon
GGAAGTGACCCGGTCTCTGAAGGACTTTTCCTCTAGCAAGAGGATGAATACTGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015420:ENSRNOT00000021178:10
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=0.571
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)
Main Inclusion Isoform:
NA
Other Inclusion 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]