DreINT0092285 @ danRer10
Intron Retention
Gene
ENSDARG00000076592 | man1b1b
Description
mannosidase, alpha, class 1B, member 1b [Source:ZFIN;Acc:ZDB-GENE-070705-482]
Coordinates
chr5:28585765-28586178:-
Coord C1 exon
chr5:28585984-28586178
Coord A exon
chr5:28585897-28585983
Coord C2 exon
chr5:28585765-28585896
Length
87 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
AATCTTGTAATGTCTTATAGATT
3' ss Score
7.44
Exon sequences
Seq C1 exon
GACCATTTGGTATGTTTCCTGCCTGGCACGTTGGCACTGGGGGTGCATTACGGCCTTCCCGCTGATCATATGGAGCTTGCGAAACAGCTGATAGAGACCTGCTACCAGATGTATGCACAGATGGAGACCGGTCTGAGTCCAGAAATAGCCCATTTCAACATGCACGATGGTAGCACACAGGATGTAGATGTGAAG
Seq A exon
GTGAGCTTAGGAGGATATTTTAGGTGTGTTTACTCTCAGCTGATGTAGGTGAAATAAATCTCTTTGTAATCTTGTAATGTCTTATAG
Seq C2 exon
ATTGCGGACCGCCACAATCTTCTGCGTCCAGAAACCGTGGAGAGCCTCTTCTACCTGTACAGATTGACCAGGGATAAGAAGTACCAGCAGTGGGGCTGGGAGATCCTGCAGAACTTTAACAAGTACACAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076592:ENSDART00000109926:12
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=0.000
Domain overlap (PFAM):
C1:
PF0153215=Glyco_hydro_47=FE(14.6=100)
A:
NA
C2:
PF0153215=Glyco_hydro_47=FE(10.0=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:
GCCTTCCCGCTGATCATATGG
R:
CGGTTTCTGGACGCAGAAGAT
Band lengths:
180-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]