DreINT0163243 @ danRer10
Intron Retention
Gene
ENSDARG00000087780 | tiam2a
Description
T-cell lymphoma invasion and metastasis 2a [Source:ZFIN;Acc:ZDB-GENE-030219-98]
Coordinates
chr17:49129170-49129438:+
Coord C1 exon
chr17:49129170-49129266
Coord A exon
chr17:49129267-49129356
Coord C2 exon
chr17:49129357-49129438
Length
90 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CTTTTCGATGTTGCCTGAAGACA
3' ss Score
3.03
Exon sequences
Seq C1 exon
GTGACTTCAAGATCAGCCCACGGAGATCAGGATTCATTCAAGTTTCGCTGGCTCATTCCCCTGTCAGCGCTACAGGTCAGACTGGGCAACACTGCAG
Seq A exon
GTAAGAGACGCATCTGGCATGTTTGAGTTTATAGAGATGCTAGTAATCAACAGGTGTAAATAAATCTTTGCTTTTCGATGTTGCCTGAAG
Seq C2 exon
ACACAGACTGCCTCTGGGAGCTGATTCACACCAAATCACAAAAGGAGGGCAGGCCTGAGACGGTGTTCCAGTTGTGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000087780:ENSDART00000156492:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.121 A=NA C2=0.071
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTTCAAGATCAGCCCACGG
R:
CAACTGGAACACCGTCTCAGG
Band lengths:
169-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]