GgaINT1028499 @ galGal4
Intron Retention
Gene
ENSGALG00000003144 | TRIM25
Description
tripartite motif containing 25 [Source:HGNC Symbol;Acc:HGNC:12932]
Coordinates
chr18:6255882-6256289:-
Coord C1 exon
chr18:6256263-6256289
Coord A exon
chr18:6255993-6256262
Coord C2 exon
chr18:6255882-6255992
Length
270 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
CTTTTCTTCTGTCAACACAGCAC
3' ss Score
5.91
Exon sequences
Seq C1 exon
AAGACAAAAGGAATCCTGTTAAACTTG
Seq A exon
GTAAGTTCAGACGTTCAAGATACTTACTCTGATTTTCATTGACTGCTCTTAAAATGGTAAGCAGATGATTGCTAATGGTGGTATATTATAACAGGAGTATAAAACTTGACAGTGAGCAACCTGAGCTGATACTGAAGTTAGCCCTCCTTGTAGCACACAGCTAGACCAGATAACTCTGGAGATTCACTCCAACCTGAACCTTTCTGCTTCTGTTAAGCATGTGGAGTTTCTTCGCAACTGACCAAATTCTCTTTTCTTCTGTCAACACAG
Seq C2 exon
CACCAAGCATGGGAGCACCAAGCATGGGAGCACCAAGCGCTGCAAATGCTGCTAAAGTGAAAGAACTTATTAGCAGCTTCCTGAAAAAACCCAGAGCGGAGCTTTTGCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003144:ENSGALT00000004971:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.395
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACAAAAGGAATCCTGTTAAACTTG
R:
AAAAGCTCCGCTCTGGGTTTT
Band lengths:
132-402
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]