GgaINT0020598 @ galGal3
Intron Retention
Gene
ENSGALG00000001535 | STAB1
Description
NA
Coordinates
chr12:620083-620847:+
Coord C1 exon
chr12:620083-620190
Coord A exon
chr12:620191-620715
Coord C2 exon
chr12:620716-620847
Length
525 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGC
5' ss Score
8.72
3' ss Seq
ATTTCATTTTGTGGATTTAGGAC
3' ss Score
8.62
Exon sequences
Seq C1 exon
CAATACCAGCTCATTGGAAAAATCGAGTCCTCTGAAAAATACACAGTCTTTGTTCCTGGAAATAATTCCATCGAGGAGTACTGCCGTGCTGCCAATGTGACACAGTTG
Seq A exon
GTAAGCTCACTGCTTGCTTGCAGCCCCAACACGTACTGCGATATTTACAGGGTCATATGTATTATCAGATCATAAACTTGAGCTCAGAAAGATTTGAGTATGGAGAGGAGGAGAGTATCTGATGCCATAAGCTAGGAGAAATGTGGCAGAGAAAAATGAGGGGGTGGGTTTCCTGTGATGTTACAATGGGATGTGAAAAGTCTACTGGAACTCCAAATGCAAATTTATGACTAAATTTGCATATGATGGGTGGCAGAAGATATTCTGTATTCTGGCTGGCCGTGGTATGTATGTGCCAATTTAGAACCTTTTGAAAGGCTCCAACAAACTTTTGTGGCTTCATCCAGTGAAAGAGCCATCAAGGTGTGATCAGTCCTTGTGTGATCAGTAGTTACTATGCTCTGTGGACTTAATTAGCTACTAGAGAATGCTTAGGATGCAAAGGATACCTTTGACTGAACTGTAATCTAGGAAGTCAAGAGTCCTATCATTTGATTTTTTATTTATTTCATTTTGTGGATTTAG
Seq C2 exon
GACAATGAGACAGTGCAGTTCCACATTGTACTGGGAGAGAAACTCTTGCCGTCAGATTTGAGAAGTGGAGTCCATAAGAACAGCATGTTAGGGCTCTCCTACTGGTTAATGTTTTATCAAAACAGCACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001535:ENSGALT00000002333:35
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(29.2=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(35.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATACCAGCTCATTGGAAAAATCGA
R:
AAACATTAACCAGTAGGAGAGCCC
Band lengths:
222-747
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]