GgaINT0073750 @ galGal4
Intron Retention
Gene
ENSGALG00000010081 | SH3D19
Description
SH3 domain containing 19 [Source:HGNC Symbol;Acc:HGNC:30418]
Coordinates
chr4:32691389-32692250:-
Coord C1 exon
chr4:32692064-32692250
Coord A exon
chr4:32691487-32692063
Coord C2 exon
chr4:32691389-32691486
Length
577 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
ATCTTTTCCGTATTCTGCAGCCA
3' ss Score
9.32
Exon sequences
Seq C1 exon
GACAACCGATGCTCAGTAGAGTGGTGTGAGGCACTTCATGATTTTACAGCAGAAACCAAAGATGACTTATCCTTTAGAAAGGGAGACTACATCCAAATATTGGAACAAGTAGACTCTGAATGGTACAGAGGAAGACTGAATGAAAAGGAAGGGATTTTCCCAGCAGTTTTTGTTCAGACCCGCTCAG
Seq A exon
GTAGGTGCTCTATTAGATGACAGCTCATTATTCCATAAGTTGCAGCAGTCATGACCAATTTCTGGGAGAACCTAGCTATTCCACTGCCTTAAAAACCATGCACCATTAGAGACATTAACATCCTAAAGCTGAACTGAAGTACTGAATCACTTTCTGAAATAATGACAATATATTGCTTTAGTCAGTGTGTAATTTGGAAAGTGATACAGATTCTGAAATGGGTGAAAATGTCATTTAAATACATGCAGAACACAATGCCACTGCATCTCCAAACGCAAAGTGGAAATGACAATTTTCCTTATATATCTCCTTCGGAGAGTTTAAGGAAACAAACTTCACATTTAATTATTCTAGAAGCAGAACCATGAGCATGTGTTAGTACCGTAAAATGAACTGGGAACAGTAGGAATTTTTAGTCCAGTGTGACAATGAGTTTGCCATGTAGCAGTAGTAATAACATTTGGGCACCCAATAACATACTAGTGGGGAGAAAACACCAACATAACAGGAAGCTTCTCCAGAAACAAAGATGTATTTCACTCAAATCCAAATAACTCATCTTTTCCGTATTCTGCAG
Seq C2 exon
CCAGAGGAGAGGAGACATCACAGTCTCTGGGAGGGAAGAAAAAAGCCAAAGCTCTCTATGATTTTAATGGTGAAAATGAAGATGAGCTTTCCTTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010081:ENSGALT00000016385:20
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=0.152
Domain overlap (PFAM):
C1:
PF0001823=SH3_1=WD(100=73.0)
A:
NA
C2:
PF146041=SH3_9=PU(30.6=45.5)
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:
CAACCGATGCTCAGTAGAGTGG
R:
AGGAAAGCTCATCTTCATTTTCACC
Band lengths:
278-855
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]