GgaINT0138727 @ galGal4
Intron Retention
Gene
ENSGALG00000021273 | TMPRSS13
Description
transmembrane protease, serine 13 [Source:HGNC Symbol;Acc:HGNC:29808]
Coordinates
chr24:5414803-5415266:-
Coord C1 exon
chr24:5415168-5415266
Coord A exon
chr24:5414946-5415167
Coord C2 exon
chr24:5414803-5414945
Length
222 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CGGCTCCTCCTGCCTTGCAGATA
3' ss Score
10.31
Exon sequences
Seq C1 exon
CTCAGATTCGCCCAGCCTGCCTCCCCATGCACGGCCAGCGGTTCCAGACCGGCAGGTCCTGCTTCATCACCGGCTTCGGGAAGACCAGGGAGAACGAAG
Seq A exon
GTGAGGGAGGGAGGGAGGATGCCGGCTGCTCCGGAGCTCATGCACACCCCACGTGCACGTTCCTGTGGGGTGTGTGAGGGCCGTGCCGTGCAGAGCTGACACACAGCAGGCGCTCTCCTGCCTGTGCAGCTCTGCAGAAGGTGTGCGAGAAGCAGCAGCTTGCTCCCTCCTACAGCGGGGGACTGAGGCTGGCCCTGCCCGACGGCTCCTCCTGCCTTGCAG
Seq C2 exon
ATAACACCTCCCCAAAGCTGCGGGAGGCCGAGGTCAAACTCATTGACTACAAGATCTGCAACAGTGACAAGGTGTACGAGGGCTACCTGACCCCGCGCATGATGTGCGCTGGGTACCTGCAGGGGGGGAAGGATGCGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021273:ENSGALT00000011876:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.377
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(14.4=100)
A:
NA
C2:
PF0008921=Trypsin=PD(15.2=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAGATTCGCCCAGCCTG
R:
CTGGCACGCATCCTTCCC
Band lengths:
242-464
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]