GgaINT0127275 @ galGal4
Intron Retention
Gene
ENSGALG00000003144 | TRIM25
Description
tripartite motif containing 25 [Source:HGNC Symbol;Acc:HGNC:12932]
Coordinates
chr18:6259508-6261401:-
Coord C1 exon
chr18:6260679-6261401
Coord A exon
chr18:6259604-6260678
Coord C2 exon
chr18:6259508-6259603
Length
1075 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TCTGATCTCCTCTCTTGCAGTCA
3' ss Score
9.97
Exon sequences
Seq C1 exon
ATGCAGCCCGGAGCGGACCCGCCGCGCCCCTCTGGAGGCGGGGAAATGCCACGCAATACTCCGGAAAGCCGCAGCCCCAGTTTCGTTTCTTCGCAGCCGGACGGCAGCAGCGGGAGAATGGCGACGTTGACCAAAGCTCAGTCGGAGCCGAATCTGTTGGCGCTGGAGGAGGACCTGACGTGCTCCATCTGCCTCAGCATCTTCGACGCCCCCGTGACGGTGCCCTGCGGGCACAACTTCTGTGCCTACTGCCTGGAGCAAACCTGGGCCAGCCAGGTGCGGGACTTCAGCTGCCCGCAGTGCCGCACCACCTTCCCGGACCGCCCGCAGCTCCACAAGAACACGGTGCTGTGCCGGGTGGTGGAGCAGCTGCAGGGCTGCGGGGACGGGAAGGAGGACGATGAGCACGAGGAGGAAGAGCAGGAGGCGGCAGCCCCCATCTACTGCGACAGTTGTCTGCAAGCGGCCGCCACGCAGACCTGCCTCACCTGCATGGCCTCCTTCTGCCCCGAGCACCTGCGGCCGCACTACGACAGCCCGGCCTTCCGCCACCATCAGCTGTGCCCGCCCGTGCGGGACCTGCAGCAGAGGAAGTGCCCGCAGCACAACAAGCTCTTTGAGTTCTTCTGCAGCCAGCACAGCTGCTGCATCTGCTCGCTCTGCCTGCTGAGCCACAAGCTGTGCCACACCAGCCCGCTGCAGCAGGCCAAAGACAACGCTGAG
Seq A exon
GTGAGAATGGGGCCCGGCCCGGAGCAGAGTTCTCCGCAGACACTCCCTGGGGTGATGGTGGAACTGCACTGCGTGCGGGGCCATGGGTGGCAGAGTGCTAGGAGACAGACCTGGGCTGCAGTCCTGTATGTGGCCTTGGCAGATAGCTGTCTGCCCTCCCACATGTGCCTGAGTACGTCTCCACAGCCGCTGCGTGTGCTTTCCTTCTCTCTAAGGCTGTGCTCCTGCCCCCAGGACAGGGAAGTGCTGTGGCGGTGCTGAGCACAAAGCAGTGCTGAGGGCAATCCCTGCTCTGTGCCTCAGAGGCCCCAGCACTGCTTGGCCAGGCTGCTGTCCTGCGGGGCTGTGGCACAGTGCCCATCCCCAGCACTCTGAGGAGGGTCTGCTGCGCGGCCTTAGCGAGAGACTGCAGGCGCACGCTGTGCAGGGTGTGTTCTAACAAGGCAAAGAATCATAAGAGTAGCTTAGGGAGATCTGTAGCACGAGCAAAATGAGCCAGGAGCTGACCTCCGTGAGGCAGCAGGGAAGGAAACCTGGCCATTGCATTTCACAGCACGGCAGCTGACTACAGCACATCTGGGAGGTGTAGGGGGCAGAACTCCCATCTGCTCAGTGCCAGCATATAGGGCTTAACTGAAGACAGCCCCTCTGACTTTGCTTAGCAGCATTTCTCAGATGTGATCCAATCACACCTGAAAAATAAAATACTCTGTTAAAATGAGGGGTGAACAGCAGTATTTACCTAGTGCACAAAGTCCAGGCTAAGAGCTAAAGCAGTTTGTTTTCAGCGCTGGGAGCTGCTCTGCTGATGAAAGCATTCTCCCTTACCAGGGGAATGACTCAAGGATGCCCATCTTGCTTTTGGAAAAGGTGTGGCTGTGGGGGTGCTGGCCCCACAAACTGCATGCATGCAGGAGAGCACTGCTTAAGGAGCAGTGGATTTAAACGGGTAGTACCAAATGCTTACTGTGGTTATCTAGAACTCTCAACTGTGACTCCTACTCCAGTAACCATGACCTGACTGACAGCATGGCAACGCCTTTTCTAAACTGCTCTCTGATCTCCTCTCTTGCAG
Seq C2 exon
TCAGCATTGAAGAAGAGGCTGGCAGAGCTGCACAATCAGAGTGAAAGATCTGTGCAAGCAATGAACTCTGTGAAAACAATCCAAAGACAAGCTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003144:ENSGALT00000004971:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.245 A=NA C2=0.219
Domain overlap (PFAM):
C1:
PF152271=zf-C3HC4_4=WD(100=17.0),PF0064319=zf-B_box=WD(100=15.8)
A:
NA
C2:
NO
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:
CGATGAGCACGAGGAGGAAGA
R:
GCCAGCCTCTTCTTCAATGCT
Band lengths:
348-1423
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]