GgaINT0120020 @ galGal4
Intron Retention
Gene
ENSGALG00000016144 | TMPRSS2
Description
transmembrane protease, serine 2 [Source:HGNC Symbol;Acc:HGNC:11876]
Coordinates
chr1:108304230-108305152:-
Coord C1 exon
chr1:108305109-108305152
Coord A exon
chr1:108304405-108305108
Coord C2 exon
chr1:108304230-108304404
Length
704 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGC
5' ss Score
8.89
3' ss Seq
GTGTATGCCTGGCTTCTCAGAGT
3' ss Score
6.57
Exon sequences
Seq C1 exon
TGATTACTGTGCATCAGGAAATGTGGTTTCTCTGCGCTGCATAG
Seq A exon
GTAAGCGTATGTTTCTCAGACTTTTGCTTGTTGATGCCTTGAAGCACTCTGTCTGTAAATCCTTTTGAATCTGCATGAATGATTGTTTGATGGGAACTACGATTAGATACTGTACTCAGGTTTCAGACTTTAAGGAGCAGGATGGAAGAGGAGACAAGGAGGATGTTAGGTCCCCAGCTCTGTCTTTATTGCTACAAGTTCCTTTAAACAGCGTGTCCCATAGTGAGCTCTGTAGTCACTGCTGTGCAATGTGGACGGAAGTCTTTAGTGCACTGGCTGACACATGGCCATCAGGTGGTCATCACTGTTCCTCACCACAGTGTGGTGACCCTTCAGCGTTGCCTATCCTCTTGCACAGTGGTGTGTGTCTGCATGGCTCACCAAAGACACTCAAAGTCCAGCGTTCAAGGGTGTAACAAACCACCCTCTTACAGTTCACTTCCGAAGTGATGAACTGTGTGCCACAGCTACCAGTGAGGGAGGGCAGCGTGAAGGGTTCCTGGGCTGCAGGAGCCTTGGTCAACCCTGTCCCCGTGAATCTGAGCACCATAGAGCAATGGCTGGGCTGTGGCGTCAACCCACAGCAGTGCGGTGGATGCGGTCCGTGCTCCCTTTCTATTGAGCTTTAGTGAAGCCTGGGATGAAGAAACCGCCTTTGAGACCAGCTCTCTCTAATGCATGTCTGTGTATGCCTGGCTTCTCAG
Seq C2 exon
AGTGCGGCCTGCCCACTAAAAGCACAGCTGTCATGAGCAGGATCGTGGGTGGCAGCATGGCGTCGCTGGGGCAGTGGCCGTGGCAGGTGAGCCTCCATGTGCAGGACACCCACGTCTGTGGAGGCTCCATCATCACCCGCGAGTGGCTGGTGACGGCGGCCCACTGTGTGGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016144:ENSGALT00000026003:7
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:
PF154941=SRCR_2=FE(15.5=100)
A:
NA
C2:
PF154941=SRCR_2=PD(5.2=8.5),PF0008921=Trypsin=PU(19.2=74.6)
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:
CTGTGCATCAGGAAATGTGGT
R:
ACTCGCGGGTGATGATGGAG
Band lengths:
182-886
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]