DreINT0076122 @ danRer10
Intron Retention
Gene
ENSDARG00000063126 | gusb
Description
glucuronidase, beta [Source:ZFIN;Acc:ZDB-GENE-070705-256]
Coordinates
chr5:1820238-1820906:-
Coord C1 exon
chr5:1820728-1820906
Coord A exon
chr5:1820385-1820727
Coord C2 exon
chr5:1820238-1820384
Length
343 bp
Sequences
Splice sites
5' ss Seq
CATGTAGGA
5' ss Score
1.81
3' ss Seq
TGTGTGCGTGTGTGTCTCAGACG
3' ss Score
8.67
Exon sequences
Seq C1 exon
ATTCGAGGGAAAGGCTTCGACTGGCCTCTGGTGGTGAAGGATTTTAACCTGATGAAGTGGATGGGAGCCAACTCCTTCCGCACCAGCCACTATCCGTACGCTGAGGAGATCCTGCAGACGGCGGATCGACACGGCATCGTCATCATCGACGAGTGTCCGGGAGTCGGCATTAAAGACAT
Seq A exon
GTAGGAGCTTTAACAATTCGATTTTTATCCGTACTTTCAGTGCCTTTGTGTCGGTCACACTTTTCAATAAGTAGGGGTGTGACGGGCTCATATAATCCAGGGGTGTTCAAACTCAGTCCTGGAGGGCCGGTGTCCTGCAGATTTTAGCTCCAACTTGCCTCAACACACCTGCAAGGATGTTTCTAGAAAGCCTAATAAGAGCTTGAATAGCCCAGGTGTGTCTGATTGGGGTTGGAACTAAACTTTGCAGGACACCGGACCTCCAGGACTGAGTTTGGACATCCCCAATATAATCAAATAACATGTGTGTTTTTGTTTATGTGTGTGTGCGTGTGTGTCTCAG
Seq C2 exon
ACGCAGTTTCGGTAATGTTTCTCTGGCTCATCATCTGACCGTGATGGAGGAGCTGGTCAGACGTGATAAAAACCATCCGTCTGTGGTCATGTGGTCGGTGGCCAATGAGCCGGCGTCTGAAATGCCGCCTGCGGGACTCTACTTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063126:ENSDART00000091932:7
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:
PF0283612=Glyco_hydro_2_C=FE(19.5=100)
A:
NA
C2:
PF0283612=Glyco_hydro_2_C=FE(16.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCGAGGGAAAGGCTTCGACT
R:
CGCAGGCGGCATTTCAGA
Band lengths:
311-654
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]