DreINT0163240 @ danRer10
Intron Retention
Gene
ENSDARG00000087780 | tiam2a
Description
T-cell lymphoma invasion and metastasis 2a [Source:ZFIN;Acc:ZDB-GENE-030219-98]
Coordinates
chr17:49125574-49125897:+
Coord C1 exon
chr17:49125574-49125692
Coord A exon
chr17:49125693-49125788
Coord C2 exon
chr17:49125789-49125897
Length
96 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAG
5' ss Score
6.62
3' ss Seq
TCTTCTACTTCTCCTGTTAGGTC
3' ss Score
10.19
Exon sequences
Seq C1 exon
AGGCGCTTAAGGAAATGGAAAAGGTCGCAAGCCATATAAACGAAATGCAGAAGATCTACGAAGACTACGGTGCAGTGTTTGACCAGCTGGTGGCAGAGCAAAGTGGCACAGAGAAAGAG
Seq A exon
GTACAGCTGTATATACAGTGTGAAAGCACTGGAGTAATACCCTGATTTAACTGGATACGGGCTCGTCATCTGTCACTCTTCTACTTCTCCTGTTAG
Seq C2 exon
GTCACAGAGATATCTATGGGACAGTTCCTCATGCATTCCTCTGTGATCTGGCTCAACCCGTTCCCATCGTTGGGCCGTATGAAAAAGGATCCCGAGCTGACTGTTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000087780:ENSDART00000156492:20
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGGAAAAGGTCGCAAGCCA
R:
GAACGGGTTGAGCCAGATCAC
Band lengths:
169-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]