GgaINT0144390 @ galGal4
Intron Retention
Gene
ENSGALG00000000458 | TMPRSS9
Description
transmembrane protease, serine 9 [Source:HGNC Symbol;Acc:HGNC:30079]
Coordinates
chr28:624397-624885:+
Coord C1 exon
chr28:624397-624754
Coord A exon
chr28:624755-624862
Coord C2 exon
chr28:624863-624885
Length
108 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TGTACCAGCCTCACCTTCAGGTG
3' ss Score
5.83
Exon sequences
Seq C1 exon
GGAGATTCAGGAGGGCCCTTGGCCTGCGAGGTCACCCCGGGCGTGTTTTATCTGGCTGGCATCGTGAGCTGGGGAATTGGATGTGCCCAGGCCAAGAAACCTGGCGTGTACTCCAGAATTACCAAACTCAACGACTGGATCCTGGATACCATCTCGCAGTTTCCCGGTCCCAGCACAGGCGCTCCTTCCACTTCAGCCACCGCCAGAACTACTGCAGATATCCTCACGCTCCGTCCCAGCACAACAGCTACAGGTCCCATCAGTGAAACCACCCCGAGTGAGAAGGCTGCCACCACCGTGCAAGAAACCTCCACAGCTCTGAAATCCACTGAGCCTGCCAAGCCCACCCAGGCCCCAG
Seq A exon
GTAAAAGTCCAGTAACGGCCAATTCATTGAGACCTCCAGCCCTGGCACAGAGGGCGCTGAGTTGGGTTGTTGTCTTCCAGTGGTGCCTTGTACCAGCCTCACCTTCAG
Seq C2 exon
GTGCTCCAGCAACATCTGTATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000458:ENSGALT00000000620:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.483 A=NA C2=0.875
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(20.2=38.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCAACGACTGGATCCTGGA
R:
CAATACAGATGTTGCTGGAGC
Band lengths:
256-364
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]