DreINT0092294 @ danRer10
Intron Retention
Gene
ENSDARG00000076592 | man1b1b
Description
mannosidase, alpha, class 1B, member 1b [Source:ZFIN;Acc:ZDB-GENE-070705-482]
Coordinates
chr5:28588801-28589276:-
Coord C1 exon
chr5:28589088-28589276
Coord A exon
chr5:28588992-28589087
Coord C2 exon
chr5:28588801-28588991
Length
96 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAAA
5' ss Score
1.82
3' ss Seq
TCTTTGGTTTCTGTCTGTAGCTG
3' ss Score
8.78
Exon sequences
Seq C1 exon
AAAGAGATTGGCTTCAGACTGATGCCCGCCTTCAGCACTCCCTCCAAAATCCCCTATTCTGATGTGAATATTGGGAAGGGCACAGCTCATCCTCCGCGATGGACTTCAGACAGCACCGTAGCCGAGGTCACTAGCATTCAGCTGGAGTTCAGAGAGCTCAGCCGACTCACTGGAGACCCCAAATACAAG
Seq A exon
GTCAAACACAATTGGTGGTTTTTCTCCAATTCACATTTTTATTATTGAAGTTTAGTTTTTAGTTAGTTTTGTTGTTTCTTTGGTTTCTGTCTGTAG
Seq C2 exon
CTGGCTGTGATGGAGGTGATGAAGCAGGTGCACAAACTGGATGGAAAGCAAGATGGGCTTGTGCCGATGTTTATCAATACCAACAATGGACTGTTCACCCATCAGGGCATTTACACGCTAGGCGCCAGGGCTGACAGCTACTATGAGTATCTGCTTAAGCAGTGGATACAGGGAGGCAGAATCGAGCAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076592:ENSDART00000109926:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0153215=Glyco_hydro_47=FE(14.1=100)
A:
NA
C2:
PF0153215=Glyco_hydro_47=FE(14.4=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:
CAGCACTCCCTCCAAAATCCC
R:
TCATCACCTCCATCACAGCCA
Band lengths:
179-275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]