GgaINT1028497 @ galGal4
Intron Retention
Gene
ENSGALG00000003144 | TRIM25
Description
tripartite motif containing 25 [Source:HGNC Symbol;Acc:HGNC:12932]
Coordinates
chr18:6257792-6258680:-
Coord C1 exon
chr18:6258447-6258680
Coord A exon
chr18:6257949-6258446
Coord C2 exon
chr18:6257792-6257948
Length
498 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
TTTTCTGTTTCTCATTTCAGAGA
3' ss Score
11.27
Exon sequences
Seq C1 exon
GAGACAGCTGCCAGAAAGCGAGATTTGCTGAGAGCTGAGTTTTTGGAAATTAAAGCTTTAATTGAAGAAAAAGAAAACCAGACCCTAAAAGTATTTATGGAAGAAGAAAAAAGAGTTTGCAATAAGTTTGATTACGTATATAAAATTCTGGGAAATAAGAAGAATGAAATTCAGTCTCTGAGAGACCAGATTGAGATGGCACTGACTGAAGGTGATGACGTTCTCTTTTTAAAG
Seq A exon
GTAATGTGTCCTTTAGATGCAAGTCTAATTCTTCAGGTTTTTAGAATGCAGAATCACAAAAAAACGCCCTGGTAGTCCCGCTTTCCAAATCCTTTTAGTCAAGTGATAATGCAGTCACATGCAAGACCCTTCGATAACAAGATGTACTGGTAAGTACAAAAACACAAGTGAAAGAACGCTGGAACAAACTGCTGTCTGTGATTCTACCTCTCCCCAGTTCAGCCACTATTTCTGCTGTGTGCAGAAAGGCCTCTGAGGGAGAGAACTCATCTCTGTGAGGTGTTACATCTCCATGCTGTGAGGCAGAGCTTTCTTATTGCTTCAGGTATCAGGAAGCAATGCTTATGGGCTGCTGAAATTTTGCCATGGCTTTGTCTGATTGTCACCTGTGCTCTTTTGCATTTGAGATAAATGCACACAACCCAGCCCATTTAAAGTAACCTGGTTGTATTTCTCACACAAGATGGTCTGCATGAGATTTTCTGTTTCTCATTTCAG
Seq C2 exon
AGAGCAGCAGCGCTGCAACGAACATCAATAAAAGAGGCTTTTGTCCCAGTAATTGAAATGGACAACAACATGATACATGCTGCTTATCAGTCTGCCATTAACCTTAAAGATGTTGTCAAACTTGCAGTGAATGTGTCTGTGGATAAAAGAACGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003144:ENSGALT00000004971:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.132
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:
GCGAGATTTGCTGAGAGCTGA
R:
CACAGACACATTCACTGCAAGT
Band lengths:
358-856
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]