GgaINT0138726 @ galGal4
Intron Retention
Gene
ENSGALG00000021273 | TMPRSS13
Description
transmembrane protease, serine 13 [Source:HGNC Symbol;Acc:HGNC:29808]
Coordinates
chr24:5415168-5415611:-
Coord C1 exon
chr24:5415439-5415611
Coord A exon
chr24:5415267-5415438
Coord C2 exon
chr24:5415168-5415266
Length
172 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGCA
5' ss Score
1.45
3' ss Seq
CTCCTCTGGTTTTCATCCAGCTC
3' ss Score
7.69
Exon sequences
Seq C1 exon
GAACAGCATGAAGATCCTCGACGACTGGAAGGTGTACGGCGGGGTGTCGGACCTCAAGCAGCCCATGGAGGGCATCCCAGTCTCCCAGGTCATCATCAACTCCAACTACAGTGATGACCACGACGACTATGACATTGCTCTCATGAAGCTCTCCCGGCCGCTGACGCTCTCAG
Seq A exon
GTGGCAGGACTGGGTGGGTGGGGGGGGTCCTGGGGGCTGTGGGACCCCACGGGGTCAGCTCGGAGGGGAGCACTTCCTGCAGCCCACGCTCTGCCCTGGCTGCAGGGCGGGTGACTGTGCTGTTGTTCTGCTGGCGGGTGACTCACCCCTCTCTCCTCTGGTTTTCATCCAG
Seq C2 exon
CTCAGATTCGCCCAGCCTGCCTCCCCATGCACGGCCAGCGGTTCCAGACCGGCAGGTCCTGCTTCATCACCGGCTTCGGGAAGACCAGGGAGAACGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021273:ENSGALT00000011876:8
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=0.059
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(25.3=100)
A:
NA
C2:
PF0008921=Trypsin=FE(14.4=100)
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:
AGATCCTCGACGACTGGAAGG
R:
TTCTCCCTGGTCTTCCCGAAG
Band lengths:
256-428
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]