GgaINT0132589 @ galGal3
Intron Retention
Gene
ENSGALG00000002542 | GUSB
Description
NA
Coordinates
chr19:4888785-4889709:-
Coord C1 exon
chr19:4889533-4889709
Coord A exon
chr19:4888921-4889532
Coord C2 exon
chr19:4888785-4888920
Length
612 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
CCTCTGTTTCCTGGCTGTAGGAT
3' ss Score
9.53
Exon sequences
Seq C1 exon
GCTCCTTATGTGGATGTAATCTGTGTGAACAGCTACTTCTCCTGGTACCACGACCCAGGCCATCTGGAAGTTATTCCACTGCAACTTACAGCACAGTTTGAGAACTGGTATAAAACCTACCAGAAACCCATTATCCAGAGTGAATATGGAGCTGACTCGATTCCCGGACTTCACAGT
Seq A exon
GTAAGTGTTACATATGCTGAAGCCATTCTCTGCTTAATTTTCCCCTAGGATGCAGTTTCCAACAGCTCTGACTGCTGGTATATCCGCACTCCATGTCTAAGATATAAATAATAACACTTCTGTGCTTGGGTCCTAAACTACAGTGTTTCCCTTTATAATGAATCATTCTGGCAATCAAGGTATAGCTAACTGTCAACTTAAACTTACAGCATTTAAACGTCTCAAAGATGATTTAAATCTGAATCTGTACTTCGGCATTTGCAGAAAATGCCTAAGTGGAAGATGCAACACTGGGGAGTGGACATCCATGTCACAGTACCATCCCACATAAAAAGGGATGGTGCTCCTATACCTTTCACAATAAAGCACCATTAATAAAGCAAAACCACATACATTCCCCGAAGTAAACATGGCATTACATCTTGTTTCCTCTTGCAATTTCAGTAGTAGCTAATCTTCAGTAAATAGCCATTCATTTCATGCAGGGGCAATGAAAAGATCAAACAATCATAAAACTTGTCTTCAGGAAGCAGGTCTCCAATAAATGGGAAATTAATGTATGGAGCCTTTGCTGAGATTAGCTGTCACCTTCCCTCTGTTTCCTGGCTGTAG
Seq C2 exon
GATCCACCTGCTATGTTCAGTGAGGAGTATCAGAAAGCTATGCTGAAAGAGTACCATTCTGTTTTTGACAAAAAGAGGAAAGAGTATGTGATTGGGGAACTCATCTGGAATTTTGCTGATTTCATGACTGATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002542:ENSGALT00000004011:10
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(19.1=100)
A:
NA
C2:
PF0283612=Glyco_hydro_2_C=FE(14.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCCTTATGTGGATGTAATCTGTGT
R:
CTTGATCAGTCATGAAATCAGCA
Band lengths:
313-925
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]