GgaINT0116821 @ galGal4
Intron Retention
Gene
ENSGALG00000015842 | TIAM1
Description
T-cell lymphoma invasion and metastasis 1 [Source:HGNC Symbol;Acc:HGNC:11805]
Coordinates
chr1:103804403-103804896:-
Coord C1 exon
chr1:103804828-103804896
Coord A exon
chr1:103804529-103804827
Coord C2 exon
chr1:103804403-103804528
Length
299 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
CTTTTTTTTTCTCTTATTAGCTG
3' ss Score
8.72
Exon sequences
Seq C1 exon
GACCTAAACTGCCTAATGGAGAGATACCTGAAGCCTCTACAAAAGGAAACGTTCCTCACACCAGATGAG
Seq A exon
GTATGTTAACTGGTGCTTATCTTTTTGTTAGATGGCTTACATACACACACCCCTCCACTCCCCTGAACTTGCTTATTTCAGTGAGCTCTGTTAGAAATTTTGAATTCCATTTCTTTTAAAATAGCTAATTGAGCTATTGTAAAGGTACAATAATGGATAGTTTGTGTTTTTTATCCTAGACATCACTCTGATTATACAACTGGATTAAAAATTGCTGAAGTTCTAGAAGACATGATTTAGTTGCAAAGTGATCTTAACAGTGGTATTTTCAGCATGTTGCTTTTTTTTTCTCTTATTAG
Seq C2 exon
CTGGATGTTCTCTTCGGGAATCTGACTGAAATGGTAGCATTTCAGGTAGAGTTCCTGAAAACTCTTGAAGATGGAGTAAGGCTGGTTCCAGATCTGGAAAAGCTTGAAAAAGTTGAGCAATTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015842:ENSGALT00000025542:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062115=RhoGEF=FE(11.6=100)
A:
NA
C2:
PF0062115=RhoGEF=FE(21.6=100)
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:
GACCTAAACTGCCTAATGGAGAGA
R:
TGCTCAACTTTTTCAAGCTTTTCCA
Band lengths:
188-487
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]