GgaINT1028072 @ galGal4
Intron Retention
Gene
ENSGALG00000000458 | TMPRSS9
Description
transmembrane protease, serine 9 [Source:HGNC Symbol;Acc:HGNC:30079]
Coordinates
chr28:625177-625921:+
Coord C1 exon
chr28:625177-625373
Coord A exon
chr28:625374-625655
Coord C2 exon
chr28:625656-625921
Length
282 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGT
5' ss Score
6.69
3' ss Seq
CTCTGCTGTCTTTCCTGCAGTTA
3' ss Score
10.88
Exon sequences
Seq C1 exon
CACGGTGCCTCTTCCTCTGTCCCAGACTGCGGCTTAACCACTGCTCTGGCCTTCAGCAAGATCGTGGGTGGGAGCTCTGCAGCTCGAGGAGAATGGCCCTGGCAAGTCAGTCTCTGGCTTCGGCAGAAGGAGCACAAGTGTGGGGCTGTCCTCATTGCCGACAGGTGGCTGCTTTCTGCAGCTCACTGCTTTGATAT
Seq A exon
GTAAGTCTGAGATGGCCCTCGGCCTCCCTCCCACCTGCCCTTCCCCTTCCCTGTGGTCGGGTTGCTGTGCCTCACTGGAAGCACACGCTGCCTGATAGAGATGTGCCCCTGCAGGTGAGCATGGAGAGGAATGAGCAGAGCGAAGCCTGGGTGCTCTGCAGTGTGACGGAGTTGGGCTGTGGCCTCGCAGCGTGTGGCTGTGGTGCATCCCAGCCCCACAGACGCAGGAGCAGCACTCCTTGCTAGCCATGATAACAGCCAGCTCTGCTGTCTTTCCTGCAG
Seq C2 exon
TTACAGTGACCCCAAAATGTGGGTGGCCTTTCTGGGAACGCCCTTCCTGAATGGCAACGATGGCAAAATGGAGAAAATATTCCGTATCTACAAGCACCCTTTTTACAACGTCTACAGCCTGGACTACGACGTGGCGCTGCTGGAGCTGAGCGCGCCCGTCAGGTTCAGCAGCACCATCAAACCCATCTGTCTCCCAGACAACTCACACATCTTCCAGGAAGGAGCCAGGTGCTTCATCACAGGCTGGGGCTCCACCAAGGAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000458:ENSGALT00000000620:15
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:
PF0008921=Trypsin=PU(19.8=68.2)
A:
NA
C2:
PF0008921=Trypsin=FE(39.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAAGGAGCACAAGTGTGGG
R:
TGGCTCCTTCCTGGAAGATGT
Band lengths:
301-583
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]