DreINT0022479 @ danRer10
Intron Retention
Gene
ENSDARG00000101143 | VPS37B (2 of 2)
Description
vacuolar protein sorting 37 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:25754]
Coordinates
chr10:45057064-45058764:+
Coord C1 exon
chr10:45057064-45057195
Coord A exon
chr10:45057196-45058592
Coord C2 exon
chr10:45058593-45058764
Length
1397 bp
Sequences
Splice sites
5' ss Seq
GAGGTGACA
5' ss Score
3.85
3' ss Seq
GTGTTGTTTTTCCCCCGCAGATG
3' ss Score
13.98
Exon sequences
Seq C1 exon
CACAACAACAACAGAAACATGGCGGAGATCAGCGGCTTCCAGAGCGGCTTCAGCGGATACAGCAGCGAGCAGATCATGGAGATCCTGGAGGACGAGGAGAAGCTGACGAGCATAGCGAGAGACAGCGGAGAG
Seq A exon
GTGACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACCACCGTCACCGAGTGCACACCTTCGAGTCTCACACACACACACACAGAGAGAGTCTGAATTCTAAATTGTTTTAAATGAATCCTACAATTAATGGATAAATAGAGTGTTAATTTTGATTATTATTACTATTATTAGGGAGTGTAAGAGAATATTTCCAAATATCCAAATGTGAGTTTATTTACACTGAATTCACACAGTTAAACACTAAAACAACAACAACAATGATAATGAGTGTTTGTCCTGATGATCTTCTGTCATCTGTCCATCCACCCGTCTATCCACATGAGAGTCTGTCTATCTATCTATAGATGTCCATCCATGTCTATCTATCATTTATTTACTTGTCAGTCATCTATCTGTCTATCTATCCATTTATCTATCTGTCTATCTATCCATTTATCTATCCATTTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCCATCCATCTATCTATCCATCCATCCATCCATTTATCTATCTATCTATCCATCTATCTATCTATCCATCTATCTATCTGTCTATCCATCCATTTATCTATCTATCCATCTATCTATCTATTTATTTATCTATCCATCTATCTATCTATCCATCTATCTATCTATCCATCCATCCATCCATCCATCCATCCATCTGTCTATCCATCCATTTATCTATCTATCCATCTATCTATCCATCTATCTATCTATCCGTCTATCTATCTATCTGTCTATCCATCCATTTATCTATCTATCCATCTATCCATCCATCCATCTATCTATCCATCCATCTATCTATCCATCCATCTATCTATCCATCCATCCATCCATCCATCTATCCATCCATCCATCTATCCATCCATCTATCTATCCATCTATCTATCCATCCATCCATCCATCTATCTATCTATCTATCCATCTATCTATCCATCCATCCATCCATCCATCTATCTGTCTATCCATCCGTCCATCCATCCGTCCATCCATCCATCTATCTGTCTATCCATCCATCCATCCGTCCATCCATCCATCTATCTATCTATCCATCTATCTTTCTATCCATCTATCTGTCTGTCTATCTATCTATCTATCTATCCATTTATCTATCTATCTGTCCGTCCGTCCGTCCGTCTGATCTATCTGTCTGTATCTTTCTATCTATCTATCCATCCATCCATCTATCCTTCCATTCATCTATTTATCCATCCATTCTTTTTCAAACTGCTTTAATCTATATCCATCCATCCATCCACCTGTCTATCCATCTATCTGTTCTCCACATCCAGGACTCAGTTTGTGTTGTTTTTCCCCCGCAG
Seq C2 exon
ATGCAGGAGATGCAGCAGAATAAAGAGCTGATGATGGCCAGCAATCGCAGTCTGGCGGAGATGAACCTGAACCTCCAGCCGGACCTCGACCACCAGAAGATTCAGCTCACCAAGCGCTACTGCTGTTTACAAGAGCTGCACGAGTCCTACCAGCTGCGCAGGAGCACGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101143:ENSDART00000158553:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.342 A=NA C2=0.276
Domain overlap (PFAM):
C1:
PF072008=Mod_r=PU(18.5=71.1)
A:
NA
C2:
PF072008=Mod_r=FE(39.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAACAACAACAGAAACATGGCG
R:
AGCTGGTAGGACTCGTGCAG
Band lengths:
286-1683
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]