DreINT0165362 @ danRer10
Intron Retention
Gene
ENSDARG00000098686 | tmprss2
Description
transmembrane protease, serine 2 [Source:ZFIN;Acc:ZDB-GENE-041212-48]
Coordinates
chr10:38774774-38775109:+
Coord C1 exon
chr10:38774774-38774890
Coord A exon
chr10:38774891-38774978
Coord C2 exon
chr10:38774979-38775109
Length
88 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGA
5' ss Score
1.65
3' ss Seq
ACTGTGTCTTGTTTCTGTAGATC
3' ss Score
11.14
Exon sequences
Seq C1 exon
GGTTGTTTGCGTGTTTGCAAGGACGGATGTGTGAAGCAGATAAAAAGTGTGTCAGTGTGTCGCTGTGGTGTGACGGTACGGTGGACTGTCCGTCAGGAGAAGATGAAGCTCAATGCT
Seq A exon
GTGAGATCATTTCCTGTGATCATGTTTGATGATGCGTTCTTTGCTAAACCCAATAATACGATATCTGAACTGTGTCTTGTTTCTGTAG
Seq C2 exon
ATCGTCTGTACGGACCTAATTTCCTCCTTCAGAAGTACTCAAATGTGAGCGCTAATTGGAAAAATGTCTGTTCAGATGGATTTAATGACAACCTGGCCAAGCAAGCCTGTGCGGAGATCGGATACAAGTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000098686:ENSDART00000163099:5
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:
PF0005713=Ldl_recept_a=WD(100=97.5)
A:
NA
C2:
PF154941=SRCR_2=PU(81.2=88.6),PF154941=SRCR_2=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGTGTGTCAGTGTGTCGCTG
R:
TTGCTTGGCCAGGTTGTCATT
Band lengths:
177-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]