DreINT0174217 @ danRer10
Intron Retention
Gene
ENSDARG00000039319 | vps37b
Description
vacuolar protein sorting 37 homolog B (S. cerevisiae) [Source:ZFIN;Acc:ZDB-GENE-060526-254]
Coordinates
chr5:27399733-27401590:-
Coord C1 exon
chr5:27401508-27401590
Coord A exon
chr5:27400581-27401507
Coord C2 exon
chr5:27399733-27400580
Length
927 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
TCTTTATTTTTTTAAACCAGAAC
3' ss Score
6.9
Exon sequences
Seq C1 exon
ATGACAGATTAGGAAATACACCGTTGGACACATTGCTTGCACTCCTACAAGCAGAAGGGGCCAAAATTGAGGAAGAAACTGAG
Seq A exon
GTAACTTTATTACCACCAAGCTAAGCTAGCTTTATTACTTTAAATTTTTCTATTTTAATGTTTTGAGTGCATTTCAGTAATTAAAAAGCATGTCTACTGAAATCAAGAAACTATTTAATTGAACAATTTATTAATAGTTTAAAGGAAATGTCTTGATGCAACATAAATGATGTCTCATAATGAAATATTTTGGAGAAAACTGTAAGATTTATGTTATCTAAAAATTGATATTTAATTCATGCACCCCTGCTGGCGATCTACCTGTCACTTTATTGATGCAACTGGGAATACAAAATCCTTATGTGCTGCCACATTGTGCAGCTTTCGGTTTTAATTTTCAAAGGAACAACACCAAAAAGAGAAGTAATGCATGTCTTCACTGCTTTCCTGGTAATAATAAGAAGAGAAAAAAATGAGAAGATGCCTGATGGCTTGCTGGATGCCATGTGGAATTCAGCAATTCATATTCAAGTGTCAATGAGAACTATTTTACAGGGGGTGCTAGTACATCATAACAAATAATTGGATCAGCAATAAAATAAATTGATAATGTGCTGGGAAAGTGACTTTTTGAGATGCTCACCTGAAGTTTGCATGTTCACAGAGAGGCAGCAGACACAAAATACATCACACAAACAAAACCACACCATACATTCACACAGTAATCTTTATCCAGTCAGAAAAATCATACCACATTGCTCTTTATTAGGTGCACAGTGCTGCTTTTGATCTTAAATATGTCTAATTCTGTGACATCCAATGTTATATAACTAAATATGTCATAATGACTGGATTGTGCTATTCTGTCTATTTTCTATTGCAGTAAATCATAGGGCTCTAACTGGAGATTGTTCATTTTTAACATCTGGTACACTCATTAGACCATACTCATACTATTATCTCTCTCTCTTTATTTTTTTAAACCAG
Seq C2 exon
AACTTGGCTGATGCGTTCCTCGATGGAGCAGCCCCTCTGGACACATTCATCGATGACTATCAGAGCAAGAGGAAGCTGGCGCACCTGCGGCGAGTCAAGATTGAGAAGCTCCAAGAAATGGTGCTAAAGGGACACCACATGCCCCCGGCTGCACCTCCACCCTCTCGTGCTCAGGACCTTCCATCCAGGCCAGCAGCTCTCAACAGAGAGGTCAATGGTTCCCCCATGCCAATGCCCCGCCGGGCTCCTCCTCTTCCCCCCGTTAAAGAATCTCCACAGCCAGCCCCCACCACCGCCATCTCCTACCCTCCTACCTCTCCATTCCCTTCTCCTTCTATGATCCCTCCTACCTCTCCATATCCCCCAGTTCCCCCAAGAGTAGGAAACACACCACTCGTCTTAAACCAGGGTTATCCCAGCATGTACATGCAGCAACAATACGCCCCACCTCTGCCCCAGAGACCTCCTCCACGCATGGTACCGCAGCCAGGCTTCATCATACAGTGAGCGCGGAACATTACAGCCTGTGGATGACAAGAAATGCACACTGGACGTTCATTAAAAGCCTCTTATAGTCCTTCAAGCTGCATGTTATCAAATGATGTGCGCAAGTCAAAATTAAACAAGACTTTTCTACAATCACAGGGGTTGGGGGGAATCAGCAACAGGATCTTCAGTTTGCACTTTAGACAACTTTCGTATTTGATCAGTCATGATCAGAGTCATGCCGTTCCTGTTTCGCCCTCTACAGTAGCATTAGATCAAGTCTTTTTTTTTTTTACATGAGCCTCAGGGGCTTCCATACATAATGAAGATTTCAAGAGCAGGGGTTATGTCAGGCCACATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000039319:ENSDART00000078642:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.827
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(18.0=100)
A:
NA
C2:
PF072008=Mod_r=PD(24.0=21.3)
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:
ACAAGCAGAAGGGGCCAAAAT
R:
GTAGGAGGGTAGGAGATGGCG
Band lengths:
351-1278
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]