RnoINT0145620 @ rn6
Intron Retention
Gene
ENSRNOG00000015420 | Stxbp1
Description
syntaxin binding protein 1 [Source:RGD Symbol;Acc:3785]
Coordinates
chr3:11837387-11840247:-
Coord C1 exon
chr3:11840167-11840247
Coord A exon
chr3:11837526-11840166
Coord C2 exon
chr3:11837387-11837525
Length
2641 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
GCAAGGTGTGTTTTCTGCAGGAC
3' ss Score
7.17
Exon sequences
Seq C1 exon
TATTCGACTCACCTGCACCTTGCTGAAGACTGTATGAAGCATTACCAAGGCACCGTAGACAAACTCTGCCGCGTGGAGCAG
Seq A exon
GTAGGCTTGTCTTCCTTTCTTTTTGCATGGCAGAACTTCTGCCCTACCTATTCACCTCACTGAATCTTAACCTCTGACCTTGAACATCTTACAGAATCCTAGGATCTAGAGAAGGGAGAGCCCATGACCCTGGGTTGTCTCAGCTGTGGGGCCAGTATGGAGCTGCTTTGGTGGGTAGGGCCAAGGTCGTTCTGGAGTGCTGTGCCATGTGGATCTTGCATGCCTGCTCTTCCCAAAGGCTCTGTTTGTCCTGGAGTGACAGCCCTGACCGTGGCGGTTTGGCTGGTGTTTATGTTCTGATGTGCTTTGGTCCCACTCTGACCAGACCGGCGTTGGAGGGTCAGAGGTCCCACTCTGACCAGACCGGCTGCGAGGGCTGCAGCAGGGCGTGAGTCCTCCAGCCTTGCTAACCTCAGGCCGGATGGGACTCTGCCCTCACTGGTGTACTCGGTGTCCCTGCTCCCTTTTCCCTGCCCTCACTGGTGTACTCAGTGTCCCTGCTCCCTTTTCCCTATCTCACAGCACTGATGTCACTGTCACCTTGTGTGAAGTGTGGCAAAGCTGCTAAGCTGTGTGACAAGTGTCTTGTTATTGCTTTCCATCCCCTTGAATTGACTCAGGGTCTCACGTAGGCAGACGAGGCCCTCAAACACTGGGCCTCTCTTAGCCTCTCGTGTCAGGGTCTGAGGGAAGGAAGAAGACACTGACAGATTTCAGACTTGGTGGCTCAGGCCTGAATATTTACATATGATCCATTACAGTATGACGTTATGAAGTAGCAATGAAACAGTCCTATGGTCGGGGTCACCACAACATGAGGAACTGTATAAAGGGTCGCAGCACTGGGAAGGCGGAGAGCCATTGTGCGGCTCAGGAAGAAGCAAGTTCATATTAACTGCCTAGAAGGCCGAGCCAAGAGGACCCCAGGTTCAGCCACCCTGGCGGCTTAGTGACAGCCTTTCACACTTACCACCACCAAAGCGTTCTAAAGCCTTGTGGGAGTTTCTCTTGCAGGAGGCCTCAACCCATGCTCTCAGTGTGGGACTGAGAGTCTCACCCTTGGCTTGCTGCCGTAAGAGGCTCAGAGTAGGCTTGCATGCTCTGTCCAACAGTGTTGGCTGGGTTACATTAATTGCACAGGTTTTGTTTGGTTTTGGTTTTGGTTAACAATCTAAGTATTAAGCTGGTTTTTGTGATGCACACCAGTAATCCTAGCACCCGGGAGCAGAAGCAGGTGGATTTCTGTGAACTCAAGGCCAGCCTGGTCTATATAATGCACTCTGGGACAGCCAGGGCTATTTTGTGAGAGACCCTGTAAAACTATTCAAAAAAATTGAATTAGTTGCATTTCAGTGAGCTTAGAGGGAATGCTCTAGGGCTGGTGAAATGGCTCAGCAGGCTTGTGGCCAAGGCTGACAACCTGAGTTCAATCCCTGGAATATCTGTGAAGGAGGGCGAGAACCAACTCCCACAAGTTGTCCTCTGACTTCCAATGTGTATCAGGCATACACACTAATACAATAAATAAATGTTATTTCCCAATATCAGCCCCCCTCTTCTCCCAGTTCCCCCTCACACAGATCCTTTCCACATTCCCGTTCCCCTTCTCCTCTAAGAAGGGGCAGCCACCCCTAGGCATCACCTCTACCCCCGTGTGTGTATTTATTAATGAGACTGGGTGTGATGGCTCACCCTTTAATCCTAGCATTCAGGAGAGAAAGGTAGGAAGATCTCTGAGGTTAGGGCTAGCCTGGGCTATATATAGTATGTCCCAGGCCAGCCAGAGCTACATGGTGAGACCCTACCTCAAAAACAAAACAAAAACAAATTTGAGTGTGTGTGTGTGTGGGGTGTGTGTGTGTGTGTATTAGTTGTATTACTTTCTTCCTGCTAAGCACACATCTGCTGGATCTATTGAGAAGACTGGGGGGCTCAGACCAGGTCTGAATGTGAGGTCACCATTCTATTTGGTTAAACTCTTGGGGTCTTGATAGGAAGAGGAGCCCCAGCTACACTCCTAGGAGCCACAAAGAAAGCAGTGGCTGTGTCAGATCTAAAGTCAGCGCTCTGGCTTGTGAGCACAGCACACTGCCAGTGTGAGTGGCACCCACCCGGGCTGTGCTCGTTTCTGTCTTCTCACCTCAGTCTCCTGTCACCTTTCTGCCCTCTACCTCCAAGCCTGGGAGTCTTTCCTTCTTGTTTCCCCTCAGCCCATGAAAAGCTATAAGGAGATTAAAACCAGAGGTGAAGCTCAGAGTAGTTAAACCTTAGTATGCCCTTCCGTGCCAGGAAAGTTGGGGTGGAAAGACTCCAGCCACGAAGAGGCCCTGAGATGCCCAAGTTTTCATGAGTGGGAAGCAAACTGAGTCAGCTGAGTTGTGTGTGTCACAGGTACAGGTGCCCTGGCATCCCTGGTAGGGAACAGTGTGACCAGGTACTGTGCCTGCCTGAGGGAATCTCAGGGCTCTGAGGGTGTCTGGCCATCTTGGGATTCTGTGTCAGCCTTTGTTGCAGGAGACCTGCTCACAGCCTGCTCTGACAACACCACAAAGTTAGGCATTTGTAGATCATGAACTTGTTGAGAACTGTCACCTTCCCAGATTGTCACAGAAATAGGGCCAGCAAGGTGTGTTTTCTGCAG
Seq C2 exon
GACCTGGCGATGGGCACAGATGCTGAGGGGGAAAAAATCAAGGACCCCATGAGAGCCATTGTCCCCATCCTGCTGGATGCAAATGTCAGCACTTATGACAAAATTCGCATCATCCTTCTCTACATCTTCCTGAAGAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015420:ENSRNOT00000021178:13
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=0.085
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(4.7=100),PF140711=YlbD_coat=FE(26.0=100)
A:
NA
C2:
PF0099518=Sec1=FE(8.3=100),PF140711=YlbD_coat=PD(1.0=2.1)
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]