GgaINT0020625 @ galGal3
Intron Retention
Gene
ENSGALG00000001535 | STAB1
Description
NA
Coordinates
chr12:638715-639080:+
Coord C1 exon
chr12:638715-638859
Coord A exon
chr12:638860-638946
Coord C2 exon
chr12:638947-639080
Length
87 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
TCCGTGCCTCCATTTTGCAGATA
3' ss Score
11.23
Exon sequences
Seq C1 exon
AACAAGCGCCGCTGCGAGTGCAAGAGGGGCTACATCGGTGATGGGATCCAGTGCCTGGAGGAGGCCGTGCCCCCTACGGACCGGTGCCTGGACAGCAATGGGCAATGCCACCGGGAGGCCATCTGCACCGACCTGCACTTCCATG
Seq A exon
GTGAGCACCCACAGGGCCACAGATGGGTGCAGGCCGGGGTGGCGCAGGGTGGGCGCTGTGCTGACGCTCCGTGCCTCCATTTTGCAG
Seq C2 exon
ATAAGACCATGGGTGTATTCCATCTGCAGTCACCCCGAAAGAAGTACGACTTCACCTACGTGCAGGCACAGGAGGCGTGTGCTGCAGAGGGGGCCGCCCTGGCCACATTCCAGCAGCTGGCGGCTGCGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001535:ENSGALT00000002333:62
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:
PF129472=EGF_3=PD(44.7=34.7)
A:
NA
C2:
PF0019312=Xlink=PU(63.1=91.1)
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:
AAGAGGGGCTACATCGGTGAT
R:
CTTCTTTCGGGGTGACTGCAG
Band lengths:
168-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]