GgaINT0119260 @ galGal4
Intron Retention
Gene
ENSGALG00000015389 | TMPRSS7
Description
transmembrane protease, serine 7 [Source:HGNC Symbol;Acc:HGNC:30846]
Coordinates
chr1:88007561-88008189:+
Coord C1 exon
chr1:88007561-88007738
Coord A exon
chr1:88007739-88007920
Coord C2 exon
chr1:88007921-88008189
Length
182 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
GTGTTATTGTTTCTGAGCAGGCT
3' ss Score
7.24
Exon sequences
Seq C1 exon
GTTGCGGCAGCAGCAAGAATGGCAATCTCATCTCTCGGATCGTGGGTGGTACCAACAGTAAGGAAGGTGAATGGCCCTGGCAGGTCAGCCTCCATTTTGTGGGAGCTGCATACTGTGGGGCATCAGTGATATCAAAAGAATGGCTTGTATCTGCAGCTCACTGCTTTCAAGGGAGCAA
Seq A exon
GTAAGCAGTCTTCCCTCCTAACCCTGTCCCAGATATTGCTAGTGTCCTGAAACACCTTTAGCTTCCAGTCTGAACTGGACTGAAGGATGATGTGCCCTCCTTTTCATGTCCCACTGCTGGAGTAGGTTGTGCATTTTGGAGCATGTTTTGAAGATTTGACATGTGTTATTGTTTCTGAGCAG
Seq C2 exon
GCTGGCTGACCCCAGAGCGTGGCGTGCTCACTTGGGGATGCGAATACAAGGCCGTGCAAAGTTTGTATCTGCAGTGAGACGGATCATTGTCCACGAGTACTACAACAGCAGGAACTATGACTACGACATTGCGTTGCTGCAGCTGAGCAAGCCATGGCCTGATACAATGAGCCATGTCATTCAGCCAATCTGTGTGCCTCCTTTCTCGCACAAAGTCCGCAGTGGTGACAAGTGCTGGATAACAGGTTGGGGCCAAAAGCAGGAAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015389:ENSGALT00000024825:15
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(20.0=76.7)
A:
NA
C2:
PF0008921=Trypsin=FE(39.1=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:
TGGCTTGTATCTGCAGCTCAC
R:
CTTTGTGCGAGAAAGGAGGCA
Band lengths:
253-435
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]