GgaINT0123908 @ galGal4
Intron Retention
Description
torsin family 1, member B-like precursor [Source:RefSeq peptide;Acc:NP_001264587]
Coordinates
chr17:5692983-5693724:+
Coord C1 exon
chr17:5692983-5693110
Coord A exon
chr17:5693111-5693234
Coord C2 exon
chr17:5693235-5693724
Length
124 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
CTCCATGCTCTCTCTTCCAGGTG
3' ss Score
12.77
Exon sequences
Seq C1 exon
CAATGCAGGTGGGGATAAGATAACGGAGGTTGCTCTTGATTACTGGAGAAGGCTGAAGAGGAGAGAAGACATTCCCGCGGAGGAACTCCAAGATCTGCTCTCTGAGGAGATTTTCAGGAATCCAAACA
Seq A exon
GTGAGTACAGCACCTCTGGGTTGATGTGTGCGGGTCAGTTCTCTGCAGGCTGCTCTGCAAAGCATGAAGCAGTGCTGCCTCCTGAGCACGCCGATGGCAAGGCTCTCCATGCTCTCTCTTCCAG
Seq C2 exon
GTGGTTTCTTTCAAAGCCAACTGATCCAGAAGAACCTGATTGACTATTTCGTCCCTTTCCTCCCTCTTGAATACAAACACGTGAAGCAGTGTGTCCGGGAGGAGCTGCGTGCTCAAGGGCATCCTGAGGAGGAAGACCTCATCACTGAGATTGCCTCGGCAATGGCAGACTACCCCAGCGAGGAGAGGCTCTACTCCAGCAAAGGCTGCAAGACTGTGGCCTCCAGAGTGGCTCTGAGCACCTAGACTCCACACAGCCACACCTCGTGCTCCCGCTGCAACACCCAACCGGGGGAAGGACTTGCATCAATACTCACCTGTCTACATCTCCTTCCTTGACGGGGCTAGGATTTATCCTGTTCCAGAGGGGCCTTTTGTGAAGCCCTTTAATAAATCCTAGAGTACCCCACATTGGAAAGGACCTGTAAAGATCACCAAGTCCAAGCCCTGGCTCCACGCAGGGCCACCCAATAAATCAGACCGTATTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023709:ENSGALT00000006704:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.012
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACTGGAGAAGGCTGAAGAGGA
R:
GCCGAGGCAATCTCAGTGATG
Band lengths:
247-371
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]