GgaINT0020616 @ galGal3
Intron Retention
Gene
ENSGALG00000001535 | STAB1
Description
NA
Coordinates
chr12:631784-632687:+
Coord C1 exon
chr12:631784-631960
Coord A exon
chr12:631961-632600
Coord C2 exon
chr12:632601-632687
Length
640 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TGATCATTTTTCCTTCTTAGATT
3' ss Score
10.33
Exon sequences
Seq C1 exon
GATGCGGAGCTGCTGCCGCTGATCAGTAACCCCCTGCACAGACCCTTCACCATGCTCTGGCCTACAGATGCTGCATTTAATGCTCTCCCGGAGAAAAGGCAGCAGTGGCTGTACCACAGGGAGCACCGGGGCATGCTGGCCTCCTACCTCAAGGCACACATGATCAGAGACACGAAG
Seq A exon
GTAAATGTAACAGCAAGTAGGCTGGTGCCTCCCAGGTCACACATCTGCCTATGGCTGCGCCAGAGCGACCTTGTCCAATATTTTGCCATGTAGAACATGCAGCATATCAGCTGCATACCGTCTGTGTTGGAAAGACCAGGCCCTGTTTGAGCATATGCGGCACTCTATCACAAACCTCTGGTGCAGTGTGGCTGAGCTGAACCCTTCCTGCACAAGCTGCAGGGAGGCCACATCTCTCTCAACTGCCAGCGCATGGCTCACAGGAGCTCTTCTCTATGGGGATGATGCATCTGCCAGATCTGCCTGCACACACACTGGTCCCTTACTGCTCAGGACACCAGGACTAACCATTACAGCATTCCTCCCACACCAGCATGGTGTGCTGCCACTTCGCACCTCCTTGGTGTGGCTTCTGGCCCTATCCCTCATCAGGCAGCACTCGTTTTTGAAATGCAAACTGTCAGCTTTGCCTGTCTCTCCTGGCATTCAAGGCCAGGCTGGATGGGGCTGTGAACAACCTGGGCTAGAGGGAGGTGTCCCAGTCTATAGCAGGGGGCTGGAACTACGTGATCTTAAAGGTCCCTTCCAACCCAAACCATCGTATGACTGTGATTCTATGTTGATCATTTTTCCTTCTTAG
Seq C2 exon
ATTGTTGCTGGTAACATGCCCCAGGTCAAGTCCGTACGGACCATGCATGGCTCCACTGTCTCGTTCAGCTGCAGCAGAACCCATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001535:ENSGALT00000002333:53
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:
PF0246917=Fasciclin=FE(43.9=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(21.2=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:
CTGCTGCCGCTGATCAGTAAC
R:
ACATGGGTTCTGCTGCAGC
Band lengths:
254-894
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]