GgaINT0132590 @ galGal3
Intron Retention
Gene
ENSGALG00000002542 | GUSB
Description
NA
Coordinates
chr19:4887303-4888920:-
Coord C1 exon
chr19:4888785-4888920
Coord A exon
chr19:4887526-4888784
Coord C2 exon
chr19:4887303-4887525
Length
1259 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
ATTTTATAACTTCTCTACAGGGA
3' ss Score
8.02
Exon sequences
Seq C1 exon
GATCCACCTGCTATGTTCAGTGAGGAGTATCAGAAAGCTATGCTGAAAGAGTACCATTCTGTTTTTGACAAAAAGAGGAAAGAGTATGTGATTGGGGAACTCATCTGGAATTTTGCTGATTTCATGACTGATCAAG
Seq A exon
GTAAGCTAATATTTACATTCTGAACAACTCTGCAATCTCCCTGCAAGTATAAAATGATTTATGACACATAGAAAGAATACTGTGTTGTAGAGTAGGACAAAGGGACCGTCTACGTTTGGAGATGGAACACAGCTGGTTTCTGTGACAAAGTCCAGTGTGACTAAAGCCAGGGGGGAAGGTCCTTCTGTACTTAATGCATTCTCTTTCTCCAGCTTGAGGTCCCAGCTGTTCCACCTGCCAAAATGTTAGCCAGAATGTGGGACAATGCAGGAGGGCAGAACACAAGGGAAGCTTCTAAGCAGACACAGATTACATCTCTTTCTTGGCCTTCCTCAAGTCAGAGATTCAGTTAGCTTTTAGGAAAGTGTCTAGCTTGCTTCATATTTTATCTGCTACTGCACTTCACAGTGCAGCACCATAAATAAATGTATTATTAACTTGGCGTAGAGATTTAGCAGTGGAGGGCCAGATATCACAATGGCTGACAGTGGTCTACTGTGACACCTAACCCACTATAAATAGAAGGTAAGTGTATTTATTAAGTATGGGGCACTACAGTGCAGTCACACAAATTAAGCTATTGTAACTCAGAAGGAGACCTAAAGAACCAATTACGCATACGCCACCTACAGCACGTTAGGGTAGTGAACTGTCAGTGATAATAGCAGGCAGGTAATCACCATTTAAAATAATTTGTAGAGCACCAACATAGGTATTCAAAAGCTAAGTTGTCACAGAGAAGCAGTCAGCAAGGTTCAAACAGGACAATGGAAACAACTTAGACAAACTTACATACACAGATGCAGTTCCAATCTCTCTACACGTTGCAGTCACTACTTCTAGTTTCCTATCAAGTCTAAAGTAGGCCAAAAGAATGTGGGCACCACTAAAGGATAGAACAGCCAAACAATTAGTAACTGACATCATCATCAAGTTAAAGGGTGGCATTAAGGGCAGAAGTAACATCTGCTGTAAATGCGATACTGATAATAGTGTTAATAGACATACCTGAATTAACTGTCATCGACTTCCAGCTGTAAATGCAATGAATTGCAGCTATATTGCTCTGTTCTATCAGTTACTCTTGCCAAGATCACACAAATTACCTTTGCCAAACTCCCCGTTGTATGTGACGTGTAGAAGTAAGTGCATAGGTCTCTCCCACTTAACCTGATTTAGAACATACATTGAAACAGTTCACAATAGTGGATAGAAGAGCATTTTGTATATAACTGCTTTATTTTATAACTTCTCTACAG
Seq C2 exon
GGACCACACGTGTTCTGGGGAACAAGAAAGGAATATTTACCCGCCAACGACAGCCCAAGTCAGCTGCATTTGTTCTGAGAGAAAGATACTGGAAGATTGCAAATGAATCAAGCTGTGTTCCTCCTATAATAAAGTCACATATCCTCTTTCTATAATGAAATGAAAAGGCATTAACAGCTGGGTACTATGCTGAACTTTTTAATTAAATTTCTGTTTAAATAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002542:ENSGALT00000004011:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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(14.9=100)
A:
NA
C2:
PF0283612=Glyco_hydro_2_C=PD(11.2=65.4)
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:
GATCCACCTGCTATGTTCAGTGA
R:
AAAGTTCAGCATAGTACCCAGCTG
Band lengths:
334-1593
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]