GgaINT1028043 @ galGal4
Intron Retention
Gene
ENSGALG00000006081 | TMPRSS12
Description
transmembrane (C-terminal) protease, serine 12 [Source:HGNC Symbol;Acc:HGNC:28779]
Coordinates
chrLGE22C19W28_E50C23:132782-133878:+
Coord C1 exon
chrLGE22C19W28_E50C23:132782-132980
Coord A exon
chrLGE22C19W28_E50C23:132981-133606
Coord C2 exon
chrLGE22C19W28_E50C23:133607-133878
Length
626 bp
Sequences
Splice sites
5' ss Seq
GATGTGGGT
5' ss Score
2.02
3' ss Seq
CTGACTGCGTTCCCCCTTAGGGA
3' ss Score
9.73
Exon sequences
Seq C1 exon
AGTGCGGACGGCGGCCGCTCATGGACAGCGCTGCGGGGTCCAGGATCGTGGGCGGCCACGAAGCCCCATTGGGAGCGTGGCCGTGGGCCGTCAGCCTCCAGGTGCACCTCGTGGGGGTGGAATTCGCCCACGTGTGCGGAGGAGCTTTGGTCAGTGAGAACTCCGTGCTCACCGCCGGTCACTGCACGACGGGACGGAT
Seq A exon
GTGGGTATCGCTGCTGACAGCTGCTTTTGTTATGCAGAGGGAAGGTGTAGTAGATCTGCAGGTCGTTACTTTGGGCACCTTTAGACAAAGTGCAGATGAATGGGACGTGGGGTGGGCAGAGCTCTGCTGATGCAGGACCCATCTGCAGCCCCACGGTGGGGCTGAATCTCGGGACTCGGCTCAGTCCTTTTGGGCCCAGGTGACATTTCTGGCAGGCTGGGGGCTTTCTGTTTGCTTTGCCTATTTTTTTTTTCCCCCATGAGCTTCTGATTTTTCAATAGACCTTTCTAAACAAGCAAAGCAAAGGTTTAATTGACCTTTCCAAACAAGCAAAGCTCCCTGCAAAAGAAAACGTTGCAATACTCAGCTGAGAAACACAACAACTCTGTAGAGCTCCACTGTTTTCCCCTGTTCCATTCCCATTTCTATTTCCCGCTTAACAAACAACAAATTCAACACAGCTCCTTTTCTTTGGCAACGTGGTCACAAACCTTTTCAGAAGAGGCTTTTTAACTGCACCCAAACCAATGCTGAATTTTGGCCATCCCAACACCGTGGCTGTTAACACAGTTGCAAAATCTACACCGTAGCTTTTGCAAGCTCATGCTGACTGCGTTCCCCCTTAG
Seq C2 exon
GGACCCATATTATTGGAGAGCTGTGCTGGGCACGGATAACCTTTGGAAACACGGCAAACACGCAGCGAAAAGAAGCATCACCCACATCTTTGTGCACCCCGAATTCAACAGGGAGACGTTTGAAAACGACATCGCGTTATTTAAGCTCCATTCTGCTGTGCACTACAGCAATTACATCCAGCCCATCTGCTTACCTCCTGCACACCCTCAGCTGTACACCCACAACAAAACAAAGTGCTTCATCAGCGGCTGGGGACGCATAGCAGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006081:ENSGALT00000009813:2
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(21.4=76.1)
A:
NA
C2:
PF0008921=Trypsin=FE(38.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGAATTCGCCCACGTGT
R:
TTTTCTGCTATGCGTCCCCAG
Band lengths:
353-979
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]