DreINT0167058 @ danRer10
Intron Retention
Gene
ENSDARG00000056985 | tpte
Description
transmembrane phosphatase with tensin homology [Source:ZFIN;Acc:ZDB-GENE-030131-5503]
Coordinates
chr10:24723080-24723418:+
Coord C1 exon
chr10:24723080-24723127
Coord A exon
chr10:24723128-24723256
Coord C2 exon
chr10:24723257-24723418
Length
129 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
TACTTTCATTATGTTTGCAGTGT
3' ss Score
5.62
Exon sequences
Seq C1 exon
TCAGGTCCGGAAAAAGATAACTCCTTTTGTGATGTCCTTTGGTTTTCG
Seq A exon
GTGAGTGGCATACTGGAATTTGATGTTACAAATAAAATGTCACAAAGTGTTTAGGTACTGTATTATCCCCCAAATAAATATATTATAAGCAGAGTTTGATCAAACAGGCTACTTTCATTATGTTTGCAG
Seq C2 exon
TGTTTTTGGCCTGGTACTGATCATCTTGGACATCATTATGGTCATTGTGGACTTGTCTCTTTCTGAGAAGAGTCGTGATGTTGGAGGTGCACTGGAGACTGTTTCTCTGGTCATCTCTTTCTTTTTCCTCATCGATGTATTGCTCCGTGTTTATGTGGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000056985:ENSDART00000079549:5
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:
NO
A:
NA
C2:
PF0052026=Ion_trans=PU(20.8=38.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGGTCCGGAAAAAGATAACTCC
R:
CCCTCCACATAAACACGGAGC
Band lengths:
210-339
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]