GgaINT0046555 @ galGal3
Intron Retention
Gene
ENSGALG00000012513 | STAM2
Description
NA
Coordinates
chr7:37042982-37044913:-
Coord C1 exon
chr7:37044829-37044913
Coord A exon
chr7:37043058-37044828
Coord C2 exon
chr7:37042982-37043057
Length
1771 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGC
5' ss Score
8.84
3' ss Seq
ACTAATACTTTCTTCTTTAGGGC
3' ss Score
9.81
Exon sequences
Seq C1 exon
AAAAGGCTACAAATGAACACAACACCAGTGAGGACTGGGGTCTTATTATGGACATATGTGACAAAGTTGGAAGTACTCCTAATGG
Seq A exon
GTAAGCTGTACTCTGTATCATGATGTGTGATTTCATGTTGGTGTGAATAATACTGCTTCAGAGGTAACATGTGTCAAAACATTCATCACAGTCAGCTACACAGAAAGCACTACAGCTCTGACACTTCTGTGAGCCCTACAGCTGTGTGTGGCTGGCTTTAAAGTTCTTTGAAAGAAATATTCCAGCAGGACTTCCAGTGGAGCAATTGGTAGATGGTGAGTGTGTTCCAATTGGAGGAAGTTTTGCGCAGTAGATTTTAAATTAAATGATAATTATTAAATATATATTTAATAATAATTAGATTATTATATTTAATAATCTTGCATATGTTTTGTAAATCAACTGTGCCAATAGGAAAAAGTGAACTAGTTTCTTTGCGGAGGGGAAAAAGAATATATAGGGCAGTTAGCTATTTATGATGGGGAATTTGTTTATTCATTAGGAAGAGTGGGATTGATGGAGGAGAAAAAAGGAGTAAAAATTGGGATCAGCACTGAATTGGAATCAGTTTTTCTTCAGTGGTGATACTGCCACAGAAGTGGTAATTTTGGTGGTCTTGTAATTGGTAAAAGTTAAGGTGATCTTTCTGAGTTATAAAATGTACATTTTGTAGTTATCTTGGACTAGTACATATCTTGAATTTCTAAGTTATGGTAGATTTGTTTTTGTAACTTAGATATAATATTTAAGGTTACTGCATTGAGAAAGTTCTTTATGCATTCAGGAAAGAAAGGAAGATGATTGGCTATCCTTAAATGAGTACATACTTTAACAACAAGTATGTTGAACTTGTTGAAGGTCATGAATTATGGGCAAACGTATGCAATATTAGAACCAAACCTAAGCTTCTCCAGCCGTGTGTACATCAGCAAGTAACTCAGCACACCAGGACTACAGTGGTGGACCAGGGTAGCTGGTACTGAGGCCACTACATCCACCCAGTGGAGCATTTGGAGGTTTTCTTTCCCCTTTGGAACAGGTTCCATCAATTCTTCTGAACTGAATATCCGCATTGGCAGTGGTGCACGTGTTTCTGTGGCACCTGCTGCTGGCTCTGACACTGTGGCTCGTTGGGAGTGCATGTGGTGTGCACAGAGGAGCTTCTGGCACAGCTTCTTCCAACAGCAACCTAATTTGCCTGCTCAAAACTGGACTGTGAGCTGAGCGTGCACGAGTAATGCTCAGCTCCTGTAGCCCTCATATGCCTTTGTTGCTCATTTTCATGCATGGACCTCTTTAGTAGGGTGACTTTTTGAATTATTAATCATTATTCAATACTTACCTCAAATTTTACTGAAACAGGTTAAAAAATTGTGATTCATCTTAAGTGTTTTGAGAATGGGACCCAGGAGCCAACAGCATGTGAACATGGCTTTTAAATTAAATCTATAGAGAGCCTTTATAGTAGCCAATTAAATAACCATTTAATCACTGCTGCTCTCGATATATATTTTTTAAAATGTAGACATTTCTTTCATTGTCTATTTCAAATCCATTTCCTCAGCTTAGTGGCAGTTGCTCTCTTTGTGACCTATTCTGTCAGCATTATGGAAATCAATATAGAATGCCAGCATAATAATGGAGTCTTCCAATCCAGTACGCTTTTAAGAACAAGTGACATGCTAAGTATTCTTTCAGGCTTGTTCTGGGAAAAGCATGGGTTAGGTTATGTTTTTTTCAGCAGTGCCGGTTTTGTTTGCTTACAGAACATGAGTATCTGGTAAAGTTTGTTCTACAGAGTCATATTTGTCACTAATACTTTCTTCTTTAG
Seq C2 exon
GGCAAAGGATTGCCTTAAAGCCATCATGAGGAGAGTAAATCATAAAGTTCCCCATGTGGCTCTGCAAGCGCTCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012513:ENSGALT00000020440:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.241 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0079014=VHS=FE(20.7=100)
A:
NA
C2:
PF0079014=VHS=FE(18.5=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]