GgaINT0000800 @ galGal3
Intron Retention
Gene
ENSGALG00000006081 | TMPRSS12
Description
NA
Coordinates
chrE22C19W28_E50C23:107786-108895:+
Coord C1 exon
chrE22C19W28_E50C23:107786-107997
Coord A exon
chrE22C19W28_E50C23:107998-108623
Coord C2 exon
chrE22C19W28_E50C23:108624-108895
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
TTCTGTTCTGCAGAGTGCGGACGGCGGCCGCTCATGGACAGCGCTGCGGGGTCCAGGATCGTGGGCGGCCACGAAGCCCCATTGGGAGCGTGGCCGTGGGCCGTCAGCCTCCAGGTGCACCTCGTGGGGGTGGAATTCGCCCACGTGTGCGGAGGAGCTTTGGTCAGTGAGAACTCCGTGCTCACCGCCGGTCACTGCACGACGGGACGGAT
Seq A exon
GTGGGTATCGCTGCTGACAGCTGCTTTTGTTATGCAGAGGGAAGGTGTAGTAGATCTGCAGGTCGTTACTTTGGGCACCTTTAGACAAAGTGCAGATGAATGGGACGTGGGGTGGGCAGAGCTCTGCTGATGCAGGACCCATCTGCAGCCCCACGGTGGGGCTGAATCTCGGGACTCGGCTCAGTCCTTTTGGGCCCAGGTGACATTTCTGGCAGGCTGGGGGCTTTCTGTTTGCTTTGCCTATTTTTTTTTTCCCCCATGAGCTTCTGATTTTTCAATAGACCTTTCTAAACAAGCAAAGCAAAGGTTTAATTGACCTTTCCAAACAAGCAAAGCTCCCTGCAAAAGAAAACGTTGCAATACTCAGCTGAGAAACACAACAACTCTGTAGAGCTCCACTGTTTTCCCCTGTTCCATTCCCATTTCTATTTCCCGCTTAACAAACAACAAATTCAACACAGCTCCTTTTCTTTGGCAACGTGGTCACAAACCTTTTCAGAAGAGGCTTTTTAACTGCACCCAAACCAATGCTGAATTTTGGCCATCCCAACACCGTGGCTGTTAACACAGTTGCAAAATCTACACCGTAGCTTTTGCAAGCTCATGCTGACTGCGTTCCCCCTTAG
Seq C2 exon
GGACCCATATTATTGGAGAGCTGTGCTGGGCACGGATAACCTTTGGAAACACGGCAAACACGCAGCGAAAAGAAGCATCACCCACATCTTTGTGCACCCCGAATTCAACAGGGAGACGTTTGAAAACGACATCGCGTTATTTAAGCTCCATTCTGCTGTGCACTACAGCAATTACATCCAGCCCATCTGCTTACCTCCTGCACACCCTCAGCTGTACACCCACAACAAAACAAAGTGCTTCATCAGCGGCTGGGGACGCATAGCAGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006081:ENSGALT00000009813:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(21.4=71.8)
A:
NA
C2:
PF0008921=Trypsin=FE(38.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
GTGGAATTCGCCCACGTGT
R:
TTTTCTGCTATGCGTCCCCAG
Band lengths:
353-979
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]