DreINT0174214 @ danRer10
Intron Retention
Gene
ENSDARG00000017119 | vps37a
Description
vacuolar protein sorting 37A [Source:ZFIN;Acc:ZDB-GENE-030131-8312]
Coordinates
chr1:15783805-15784800:+
Coord C1 exon
chr1:15783805-15783873
Coord A exon
chr1:15783874-15784656
Coord C2 exon
chr1:15784657-15784800
Length
783 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TTATTGTCCTTTTTTTCCAGAGC
3' ss Score
10.19
Exon sequences
Seq C1 exon
TATGAACAGTTAACCCAGATGAAGTCGGTATTTGAAACCAAAATGCAAAGACAACATGAGCTCAGTGAG
Seq A exon
GTAAATACATTCAGAGTTGGAAAATAAATACTCTTTAGCATGCATTTATTATTTGCATATTTGATTTTGTGTCTGTAGGACAAGGAAATGTATTATCTGTTGGTGGTTTTTCTGCCTCTGTTGTTTAGATTTTTTTGTCCTTTTTTTGATAGTTAAATTTGGTTTTACCTAGAAAAGACTAGGTAAATTATATGAAACAAAGCCTCTTATGTTCGCCAGGAGTGCATTTATTTGAAAGAAAATAGTAAAAACTAATATTTTGAACTAATGTTTTATTTGTTTATTTGACATGGACATCACAATTCCACTAGACAAGTGTTTTAGCAAACTTGTTAGTTCTCAACACTTGTCCAAGGTGGACTTGACATTTAAAATAAAAAGATTAAAATAAAATAAATACATAAGCGCATTATAATTTACACACAATTGTTACAAGGCAAATGCAAAGGCAGCATAATCAAACAAACTAATAATAGACTATTTATGTACTAGTTTTCTGTTTTAATAATTTAAATAATGTATTCCTGTGATATCAAATCATCAGCTACCATTATTTTTGTTTTTAGTGATGCTTCATAAATGTTTCCAATATTTAGATTTGGTGCTTTTTTTGTTGTCTTACTGGTGCTTGGTTAATAATAATGTTTAATAGGCATAAATGTTTTATTATTATTATTATTATTAACCATTGTTAAATAAATAGAACAGACAAAAAAGTAATGTCAGCATAATAAGTGAACAATTTAGCCTTTCTGGTAAATTTTTATTGTCCTTTTTTTCCAG
Seq C2 exon
AGCTGCAGTTTGAGTGCGTTGCAGGCCAGATTAAAGGTAGCAGCCCATCAGGCTGAAGAAGAATCTGAGGAGACTGCAGAGAACTTTCTGGAAGGAAAAACAGAGATCGACGACTTCCTAGCCAGCTTTATGGAAAAGAGAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017119:ENSDART00000078675:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.087 A=NA C2=0.292
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(14.7=100)
A:
NA
C2:
PF072008=Mod_r=FE(31.3=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:
CAGTTAACCCAGATGAAGTCGGT
R:
CGTTCTCTTTTCCATAAAGCTGGC
Band lengths:
207-990
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]