GgaINT0127281 @ galGal4
Intron Retention
Gene
ENSGALG00000003144 | TRIM25
Description
tripartite motif containing 25 [Source:HGNC Symbol;Acc:HGNC:12932]
Coordinates
chr18:6254682-6255992:-
Coord C1 exon
chr18:6255882-6255992
Coord A exon
chr18:6255203-6255881
Coord C2 exon
chr18:6254682-6255202
Length
679 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGA
5' ss Score
4.57
3' ss Seq
CTTGATTCATGTCCTTGTAGATG
3' ss Score
7.56
Exon sequences
Seq C1 exon
CACCAAGCATGGGAGCACCAAGCATGGGAGCACCAAGCGCTGCAAATGCTGCTAAAGTGAAAGAACTTATTAGCAGCTTCCTGAAAAAACCCAGAGCGGAGCTTTTGCAGT
Seq A exon
GTAAGATACACAACATTACACTATTTAAAGATGAACTTTCTGTGCTTATTGCACTGGTGCTGTGTGACTTTTGTGGTCACCCGACAAAAAGACTTATGAAGGGTTTGGTTAGGTAGGTGACCTTTAGTAGGTTATAAAATAGTTGTTACAAGTTTTGAAGCATAAGGAGATGGGAAGTTCAACTTATTTTAAGGATTCTTTTGCCAGATGAATCAAATCAATCTTCAGTATCTTGGTATTTGTCAGAGGGTAAATGAAGTTTTATCAGTAAGGTCTTTTGATTTCTCCCAGATGATTGCATTAGGGGAAGTCTAGAAATGCAATGTAACCGACTGCATTCTTCTTTGGAATTAAATGTGGGCTCTATGTGAGCCCACAAAGGCAGTGATATCCTTTCACTGCCAGATCAGCCAGTCTCCCTCTGCTGCTGGCATATGTTTGGGTGGTGAGGGAAACCCGAGGGGATGTAGGAAGGAAGGATGCTTACCCACTGCTGCCTGCCTGCTCAGTGACACAGAGCTGCAGGTCAGCCCAGCAGCTGTTACTGCAACCAGAACTGCCTGCACTGTGGAGGAGAGCTGAGCAGAGACAGCAATACAGAAATCTGATGCCTACATGGGAGTGAATAAACAAAAGTGCGTTGATCTTTATTACCTTCCCTTGATTCATGTCCTTGTAG
Seq C2 exon
ATGCTGCTAACGTCACGCTGGATTTCAACACAGCTCACAGCAAAGTGGCTCTGTCTGAGAGATACACCAAGATGTCTGTTTCAGACACCCAACTGAATTATAACCACCACCCTCAGCGTTTCACCGACTGCCCCCAGGTGCTGGGGTTCCAGTGCTTCAAGAGAGGCATCCACTACTGGGAAGTGGAAATGCAGCAGAACAACTTCTGTGGCATTGGCATCTGCTATGGCAGCATGGAGCGGCAGGGGCCGGACAGCCGCCTGGGTAGGAACAGCAGTTCTTGGTGTATCGAGTGGTTTAATTCCAAAATTTCAGCCTGGCATAATGATGTTGAAAAGTGCTTACCCAATACAAAGGCCACTAAGATTGGTGTGCTGCTCCACTGTGATGGAGGGTTCGTGCTTTTCTTGACTGTTGAGGAAAAGCTTAATTTGATCTATAAATTCAAAGCCCAGTTTACTGAAGCTGTGTACCCTGCCTTCTGGTTATTTTCCAGTGGCACTGTTCTCTCTCTCTGGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003144:ENSGALT00000004971:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.395 A=NA C2=0.012
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF137651=PRY=WD(100=28.2),PF0062223=SPRY=WD(100=67.8)
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:
CCAAGCGCTGCAAATGCTG
R:
AACTGCTGTTCCTACCCAGGC
Band lengths:
358-1037
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]