GgaINT0126531 @ galGal3
Intron Retention
Gene
ENSGALG00000009054 | TMEM141
Description
NA
Coordinates
chr17:796275-796884:-
Coord C1 exon
chr17:796627-796884
Coord A exon
chr17:796407-796626
Coord C2 exon
chr17:796275-796406
Length
220 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CCGCGTGCTGGTCTGTCCAGCGG
3' ss Score
4.93
Exon sequences
Seq C1 exon
CAGGCGCTGCAGCAGTACGCGGCGTGTCAGGCCCACGCCTTCATGAAGGGCATCGGCACCTTCCTGGCGGGTACGGCCACGGAGGGACGCGGCGGGAGGGGCTGCCCCGGTACCGACTGCCCCCCGGCCCTGACGGCGCCGTGGCCGGGACCGCCCGGCTCGCTGTTCGGGCAGGCAGCGGCGCTGCGTTTGCCGTGCAGAAGCTGGTGAACAGGAGGCTGCCGTACGCGCTGCAGTGGAACCTGCTGCTGTCTGTGG
Seq A exon
GTGAGTGCCCCGCGCTGACCCCCCCCCGCCCCCGCTCCCTGCCCGTCGACGGCGCGGGGCCCCGCGGGGAGCACAGCCCGGGCTGCGGGAGCGGAGCCGCGTTTGCGGTTGTTGGCCGATCGCCCTCCCGCTCCCCTGTGCCCGGGGGGATCGGGCGCTGCTCGCGGGCGGCTGCACAGCCCGCGTTAGGGGGAGAACACCCGCGTGCTGGTCTGTCCAG
Seq C2 exon
CGGCAGGGTCCTTGGCCAGCTACACGGTGACCAGAGCGGAGACGCAGAAGTGCTCGGACTTCTGGATTTATTTGGAGACGGGCATGTCCCCGCGGGAGCGCAGTGTGGCTGACGGAGTGCCTCAGCCCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009054:ENSGALT00000034208:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.453 A=NA C2=0.289
Domain overlap (PFAM):
C1:
PF151101=TMEM141=PU(57.4=45.3)
A:
NA
C2:
PF151101=TMEM141=PD(41.2=62.2)
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:
TTCATGAAGGGCATCGGCAC
R:
GGACATGCCCGTCTCCAAATA
Band lengths:
308-528
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]