DreINT0163186 @ danRer10
Intron Retention
Gene
ENSDARG00000078430 | tiam1a
Description
T-cell lymphoma invasion and metastasis 1a [Source:ZFIN;Acc:ZDB-GENE-080325-1]
Coordinates
chr10:25618399-25618721:-
Coord C1 exon
chr10:25618603-25618721
Coord A exon
chr10:25618508-25618602
Coord C2 exon
chr10:25618399-25618507
Length
95 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGA
5' ss Score
8.55
3' ss Seq
ACTGTTTACTTTGACGCCAGGTT
3' ss Score
5.94
Exon sequences
Seq C1 exon
TGGCGATGAAAGCCATGAACAAAGTGGCCAGTCACATAAACGAGATGCAGAAGATTCACGAGGAATACGGAGCCGTGTTTGACCAACTCATCAGTGAACAGAGCTCAGAAAAGAAAGAG
Seq A exon
GTATGATGACGCTGGTCTCAAATTCACAATCTTTAAACTATATTGCTTGATGCTTCTGAATTAACACTGACATTGACTGTTTACTTTGACGCCAG
Seq C2 exon
GTTGCTGATCTGTCAATGGGCGACCTCTTGTTGTATGACACAGTGGTCTGGATTAACCCACCGTCCTCTTTGATGAAGGGGAAGAGAGACCCAGAGCTGGCTGCCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078430:ENSDART00000143978:19
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=PD(7.4=35.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCCATGAACAAAGTGGCCA
R:
ACGGTGGGTTAATCCAGACCA
Band lengths:
174-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]