DreINT0165422 @ danRer10
Intron Retention
Gene
ENSDARG00000029841 | tmprss9
Description
transmembrane protease, serine 9 [Source:ZFIN;Acc:ZDB-GENE-050208-573]
Coordinates
chr22:10731902-10732464:+
Coord C1 exon
chr22:10731902-10732103
Coord A exon
chr22:10732104-10732189
Coord C2 exon
chr22:10732190-10732464
Length
86 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAAG
5' ss Score
-2.9
3' ss Seq
CTTTTCCTTATATACCAAAGAGA
3' ss Score
2.53
Exon sequences
Seq C1 exon
GTAAATCTTTGATTGCTAACAGTTGTTTCAATGTAGCGTGTGGAACTCGTCCAGTCATGTCTAACCGTATTGTGGGAGGTGAAAACACCCGGCACGGGGAGTTCCCTTGGCAGGTCAGTCTCAGACTACGTGGCCGCCATACCTGTGGAGCATCCATCGTCAACAGCCGCTGGCTCGTCAGCGCCGCCCATTGTTTTGAAGT
Seq A exon
GTAAAGAAACATTTTTATAAAATCTTCATCAATCCATTACTGGGGCACTGATGTACAACTAAACAACTTTTCCTTATATACCAAAG
Seq C2 exon
AGAAAACAACCCAAAAGACTGGACAGCTCTTGTGGGTGCCAACCAAGTCAGCGGTGCGGAGGCTGAAGCCTTCATAGTAAACATCAAGTCCCTGGTTATGTCTCCAAAATACGACCCCATGACCACTGACAGTGATGTGACCGTACTGGAGCTGGAAACACCCTTGAAGTTCAGCCATTACGTTCAGCCAGTCTGTATACCATCATCCTCTCATGTTTTCACTCCTGGGCAGAACTGCATAGTATCTGGTTGGGGAGCTCTTAATCAGTACACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029841:ENSDART00000145551:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.011
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=PD(0.1=0.0),PF0008921=Trypsin=PU(19.0=64.7)
A:
NA
C2:
PF0008921=Trypsin=FE(39.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTGGGAGGTGAAAACACCC
R:
CTTGGTTGGCACCCACAAGAG
Band lengths:
180-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]