DreINT0167047 @ danRer10
Intron Retention
Gene
ENSDARG00000056985 | tpte
Description
transmembrane phosphatase with tensin homology [Source:ZFIN;Acc:ZDB-GENE-030131-5503]
Coordinates
chr10:24728281-24728552:+
Coord C1 exon
chr10:24728281-24728362
Coord A exon
chr10:24728363-24728463
Coord C2 exon
chr10:24728464-24728552
Length
101 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
3' ss Seq
GTGTGTTTTAATCCGGTCAGTGA
3' ss Score
4.43
Exon sequences
Seq C1 exon
GTGAGAAAGGTTACGATCCAAAGTTCTTTCACTACAGAGTAGAGCGTGTCATGATAGATGACCATAATGTGCCTTCACTGGA
Seq A exon
GTGAGTATCACCACAGCTCAACATGTGCTTCATCTCTGATTCCTGCTTGAAGATGTAGATGAGCTCAGCTGATCTGTGTTTGTGTGTTTTAATCCGGTCAG
Seq C2 exon
TGATATGCTGCGCTACACCGCCTGTGTCAGAGACTGGATGGCAGCAGACTCCAGGAATGTTATTGCCATCCACTGCAAAGGAGGAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000056985:ENSDART00000079549:12
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:
PF0078215=DSPc=FE(20.9=100)
A:
NA
C2:
PF0078215=DSPc=FE(23.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAGAAAGGTTACGATCCAAAGT
R:
CCTTTCCTCCTTTGCAGTGGA
Band lengths:
171-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]