GgaINT0046560 @ galGal3
Intron Retention
Gene
ENSGALG00000012513 | STAM2
Description
NA
Coordinates
chr7:37037562-37038708:-
Coord C1 exon
chr7:37038522-37038708
Coord A exon
chr7:37037657-37038521
Coord C2 exon
chr7:37037562-37037656
Length
865 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
ACACAGCTCTATGTCCCCAGTGA
3' ss Score
5.1
Exon sequences
Seq C1 exon
CTATTGAATTGTCCTTACAAGAGCAGAAGCAGCAACAAATGGAAACCAAATCCTTGTACCCGTCTGCAGAAATTCAGCAAACCAATCAGAACCTGAGGAAGGTGCGAGCTCTCTATGACTTTGAAGCTGTCGAGGACAATGAGCTCACCTTTAAAAGTGGAGAAATTATTTTTGTTTTGGATGACAG
Seq A exon
GTACAATACACCCAGATGAGGGTGCCTTTATTCTGCAGCTGTGTTAGGCTAGCAATTTTTTCCCCTGCTGCTTTCTTTTCCAGAGATGTATGTATTGTCACTCTGGCCTTCATCACATCCCTTAATCATCCACTATTCTTTCCATACCCTGAATTATTTTATCCCTTAAAAACAGTCTGAATCTTGCTTTTCTGTGGAGCCTTCCTTGCTCTCCTTCCCCAGTTCATGTATCTCTCCAGTAATTAGATGTTTCTTTACCTCCATGTGTTCCATTAGGTACTCGTTCTATGGTGTAGGTCCAATCTGTAATTTTTATGCTAATTGATTATAACATGTCATAAGAATATACATGCACACACATTACAGTGCTGAATTCTAGCTAGTTCCAGAAACTGTTAAATCTCTGGCTATCAAGCATGGTAGGAATACAACTGAAGAAAAATGCTTCAATAATTACTGTTAGCTGTTGTCACTGTTCCTCCAGCGATAGCTAAGAAGTAGAACTTGCTTATGCTGCTCTAATTTAATAGACTTTGACAGATCAATTATATTTCTAATGTTAGTCCTCACTTGTGTACCTCTTGTAAACTTTGAGGTGAAGCTGTAATGGGCTCTCATCTAGTCAATCTAAAGAACTGTGTTAAACTTGAAGTGATTGCTACTTAATAATCTCCACAAGGCATTCCCAGCTCCTGGCTTTGGGTTTGCTACTATGCTAATCTGTACCTGGGTTCTCTTCTGCCACTGTTGTTGGGCATGCAGGGAAGTAGTGCCTTAGATATCACAGGTTTCCTATCAAAGCACAAAATATCACTGATGCTGAGTGTTAATGTTCCAAGTTTGTAACACAGCTCTATGTCCCCAG
Seq C2 exon
TGACACCAATTGGTGGAAGGGTGAAAATCATCGAGGAGTGGGACTGTTTCCATCTAATTTTGTGACTTCTGATTTAAATGTTGAACCTGAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012513:ENSGALT00000020440:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.302 A=NA C2=0.152
Domain overlap (PFAM):
C1:
PF0280915=UIM=PD(44.4=12.7),PF0001823=SH3_1=PU(58.7=42.9)
A:
NA
C2:
PF0001823=SH3_1=PD(39.1=54.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTACAAGAGCAGAAGCAGCA
R:
CTGCCTCAGGTTCAACATTTAAA
Band lengths:
270-1135
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]