GgaINT0144393 @ galGal4
Intron Retention
Gene
ENSGALG00000000458 | TMPRSS9
Description
transmembrane protease, serine 9 [Source:HGNC Symbol;Acc:HGNC:30079]
Coordinates
chr28:626360-627109:+
Coord C1 exon
chr28:626360-626496
Coord A exon
chr28:626497-626947
Coord C2 exon
chr28:626948-627109
Length
451 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
CCCTTTTCCTCTCTCTGCAGGGT
3' ss Score
13.72
Exon sequences
Seq C1 exon
GCCTCATGACAAAGCACCTGCAAAAAGCAGCAGTGAATGTGATTGGAGACCAGGACTGCAAAAAGTTCTATCCTGTCCAGATCAGCAGCAGGATGGTGTGTGCTGGTTTCCCGCAGGGTACCGTCGACAGTTGCTCA
Seq A exon
GTGAGTGTGAGAGCAGCAAATGGTGTTGTGGGATGGAGCAAACTCATGCAAAGTCCCCATGTCCTTCAGGAGGGCCGTGCCCTGCCCCCCAGCCCAGCTGTCCATCCCACCACCTCCTCTTCCCATCACCTCCTCCAAGCCCATCCCACACATGCTGTGCTGTGTCCCTCCAGCCTGGGACAGCTCAGGGATGCACACAGATAACGCCAAACAGGACACCGTGAGGGTACCACAAAGCCCATTTCACAGCCCTGCTGCAGCTCTGGGTCTGAGTCCCAGTCTCTGTGCACTCACATGCATCGCTGAGCAGCCCTCTGGGCTCCAGCAGAGGCAGGCAACAGGACAGCAAATGTTCCTGCATCCTAGACAGCACAGTCATCTCCAGGCTGGGGGCTGGGTTGGCTTGGTTGTCACGCTGCCTTGGTACAGGACCCTTTTCCTCTCTCTGCAG
Seq C2 exon
GGTGATGCAGGTGGGCCCCTGGCATGTAAAGAGCCCTCTGGACGGTGGTTTCTAGCAGGGATCACAAGCTGGGGCTACGGCTGCGCCAGGCCGCACTTCCCTGGGGTCTACACCAAAGTCACGGCGGTGCAGGGCTGGATCGCGCAGAACCTCAAGCTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000458:ENSGALT00000000620:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(19.8=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.3=85.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCATGACAAAGCACCTGCA
R:
CAGAGCTTGAGGTTCTGCGC
Band lengths:
297-748
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]