GgaINT0144384 @ galGal4
Intron Retention
Gene
ENSGALG00000000458 | TMPRSS9
Description
transmembrane protease, serine 9 [Source:HGNC Symbol;Acc:HGNC:30079]
Coordinates
chr28:620814-621958:+
Coord C1 exon
chr28:620814-621132
Coord A exon
chr28:621133-621786
Coord C2 exon
chr28:621787-621958
Length
654 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
ACGTTTTGGCTTTCGTTCAGAGT
3' ss Score
6.45
Exon sequences
Seq C1 exon
GGGGACTCCGGTGGGCCGCTGGTTTGTGAAGAACCATCTGGCAAGTTTTTCCTGGCAGGAATCGTGAGCTGGGGAATAGGATGTGCTGAAGCCAGGCGGCCAGGGGTTTACACACGCGTTACCAAACTGAGAGACTGGATCTTGGATGCTATTTCTCCCTTTCCCACCTCCATAACACGCACCGTCCCACTAACACACTCCAGTACTAACAGTAACGTGGTCACACCTGAAGAACTCAGCGCCACCACCAGCACAGCAATCCCCACCTCTTCACCAGCCCTGGCTGCCAGCAAACCAGCAACTGCACCCAGACCACAAG
Seq A exon
GTATGAACACCCAGGGGGTGGGTGTGAGCTCAGGAAGAGGAGCAGCCGGCACATGTGTGAGTGCAAGGTCTGTCCTTCCACTGAGCTGGTAGCTGACCCACACAACCATTGTATGGCACTCAGTGCCTGCACAGCTGGGTGTCATGGGCTCCTTTACCTGTGCAACCAAACAGGCAGCTGTGTGCCCAGCACTGTCTGACACTGCGTAACTCTTTGATCACTCGCTTCTCTTTGCCACGTGGAACTTCCCAGAAGTTCAAAACTGGTAGCTGCAAACCCAGCAGCAGCCACGCATCGTCCCACTTAGGTGCCCTTTGGGAAGGAAGCGTGACTTGTCAGCTCCGAGAAGCTCAGCAGGGAGAAACAGATGTAAGCTATATTTCTGAATTTAGGATTGACCTTCTTACCTAGAATAGCAGGCACAGAGCTGCTGGTCACACTGCCTTTGAGAAAGGCGTAGGCCTGAGAACTTGCTAAGAACAAGCTGTGTGTGCGGTGAAAGCCCACATAGAGCTTCCAGGGATCCCATGGTCAACAGGCATGGGCAGCTGTCCCCATCTTCAGCTCAGCCTTACTGCTTAGAGAGAGCCAAAGCCTCTGCTCGCTTCTCTCCTGCTAGGAGTACTCACAGGTCACGTTTTGGCTTTCGTTCAG
Seq C2 exon
AGTGCGGAGGACGACCTGGCCTATCTAAACCCAACAAGATTGTGGGAGGAACCGATGCTTCCAGAGGGGAGATCCCCTGGCAGGTCAGCCTGCAGGAAGACTCGATGCATTTCTGTGGGGCAACGATCATTGGGGACCGCTGGCTGCTGTCAGCTGCGCACTGCTTCAACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000458:ENSGALT00000000620:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.414 A=NA C2=0.385
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(20.1=43.0)
A:
NA
C2:
PF0008921=Trypsin=PU(19.3=75.9)
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:
AGGGGTTTACACACGCGTTAC
R:
CAATGATCGTTGCCCCACAGA
Band lengths:
350-1004
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]