DreINT0021099 @ danRer10
Intron Retention
Gene
ENSDARG00000098233 | TIAM2 (2 of 2)
Description
T-cell lymphoma invasion and metastasis 2 [Source:HGNC Symbol;Acc:HGNC:11806]
Coordinates
chr20:4598777-4599058:+
Coord C1 exon
chr20:4598777-4598845
Coord A exon
chr20:4598846-4598932
Coord C2 exon
chr20:4598933-4599058
Length
87 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
GTTTTCCCCTTGTCCTGTAGATG
3' ss Score
10.19
Exon sequences
Seq C1 exon
GACCTCGGATCTCTGTTTGAGATCTATCTGAAGCCTTTACAAAGAGAAACATTCCTTAGTCATGATGAG
Seq A exon
GTATGTTTTGGTGTGTAAACTGATGAGGTCACGTTCATTTTTTTGGCACACCATGTTGGTAATTGCAGTTTTCCCCTTGTCCTGTAG
Seq C2 exon
ATGGAGTCACTGTTCGGCAGCCTGCCTGAGATGCTGGACTTCCAGAGGGTTTTCCTGCAGACCCTAGAGGACAGGACAACTTCCTCACCAGACTACCATGCGCTAGACTGTCCAGAGAAACTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000098233:ENSDART00000168322:17
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=0.048
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCTCGGATCTCTGTTTGAG
R:
TAGCGCATGGTAGTCTGGTGA
Band lengths:
174-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]