DreINT0092293 @ danRer10
Intron Retention
Gene
ENSDARG00000076592 | man1b1b
Description
mannosidase, alpha, class 1B, member 1b [Source:ZFIN;Acc:ZDB-GENE-070705-482]
Coordinates
chr5:28589088-28589516:-
Coord C1 exon
chr5:28589368-28589516
Coord A exon
chr5:28589277-28589367
Coord C2 exon
chr5:28589088-28589276
Length
91 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
ACTCCTGAATCATTTTTCAGAAA
3' ss Score
8.06
Exon sequences
Seq C1 exon
AGTTTGCAGAGGCCAGGGAGTGGGTGGCCAAAGAGCTCTCTTTCGATAAGAATGTGGATGTTAATCTGTTCGAGAGCACCATTCGTATCCTGGGTGGCCTACTGAGTACCTACCATCTCACAGGAGACAACCTTTTCCTGGATAAAGCT
Seq A exon
GTGAGTAAGAAGAAGAGCATGTTGGAGAAAGTCTTCAAACCTCTCCTCCAGTTGATTTGATGTTGTTTTTAACTCCTGAATCATTTTTCAG
Seq C2 exon
AAAGAGATTGGCTTCAGACTGATGCCCGCCTTCAGCACTCCCTCCAAAATCCCCTATTCTGATGTGAATATTGGGAAGGGCACAGCTCATCCTCCGCGATGGACTTCAGACAGCACCGTAGCCGAGGTCACTAGCATTCAGCTGGAGTTCAGAGAGCTCAGCCGACTCACTGGAGACCCCAAATACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076592:ENSDART00000109926:8
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=0.048
Domain overlap (PFAM):
C1:
PF0153215=Glyco_hydro_47=FE(11.2=100)
A:
NA
C2:
PF0153215=Glyco_hydro_47=FE(14.1=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:
GTATCCTGGGTGGCCTACTGA
R:
GGTGCTGTCTGAAGTCCATCG
Band lengths:
182-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]