GgaINT1028071 @ galGal4
Intron Retention
Gene
ENSGALG00000000458 | TMPRSS9
Description
transmembrane protease, serine 9 [Source:HGNC Symbol;Acc:HGNC:30079]
Coordinates
chr28:624863-625373:+
Coord C1 exon
chr28:624863-624885
Coord A exon
chr28:624886-625176
Coord C2 exon
chr28:625177-625373
Length
291 bp
Sequences
Splice sites
5' ss Seq
TTGGAAAAG
5' ss Score
-4.13
3' ss Seq
TGCTTGTGGTTATTTAAAACCAC
3' ss Score
-5.02
Exon sequences
Seq C1 exon
GTGCTCCAGCAACATCTGTATTG
Seq A exon
GAAAAGAAAATCCCGAATGCGACGGAGTTGTTGACTGCAGCAATGGCTTTGATGAGAGCAATTGTGGTAAGCACTGCTTTGCAGCCTCCTGCCCAGTCTGCCACGAGGAGCTGGCACGCCAGCTCTGCACAGCACCACAGCTTGCCATCTGAGCGCCATGACTGGGGCTGCACACCCCCTGCTGTGTGACAGCTGGGTCACACATCCCCATGTGTGGTAATGAGTTCCCAGTTGTGTCGCACTGCAGGGGATAGGGAAGGAATATCCCTTATGCTTGTGGTTATTTAAAAC
Seq C2 exon
CACGGTGCCTCTTCCTCTGTCCCAGACTGCGGCTTAACCACTGCTCTGGCCTTCAGCAAGATCGTGGGTGGGAGCTCTGCAGCTCGAGGAGAATGGCCCTGGCAAGTCAGTCTCTGGCTTCGGCAGAAGGAGCACAAGTGTGGGGCTGTCCTCATTGCCGACAGGTGGCTGCTTTCTGCAGCTCACTGCTTTGATAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000458:ENSGALT00000000620:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.875 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(19.8=68.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCCAGCAACATCTGTATTG
R:
CAGAAAGCAGCCACCTGTCG
Band lengths:
199-490
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]