GgaINT1028073 @ galGal4
Intron Retention
Gene
ENSGALG00000000458 | TMPRSS9
Description
transmembrane protease, serine 9 [Source:HGNC Symbol;Acc:HGNC:30079]
Coordinates
chr28:616701-617341:+
Coord C1 exon
chr28:616701-616768
Coord A exon
chr28:616769-617162
Coord C2 exon
chr28:617163-617341
Length
394 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCAGGAATTCTGTCTTCCAGCAG
3' ss Score
4.61
Exon sequences
Seq C1 exon
TTTCTGTCCAGTTTCCAGGACTCCCAGCTGGACTGGAGCTGCACTGGTTGCACCATCCTGGGCTACAG
Seq A exon
GTGAGCGTTCTCAGGGTGTTCTGATGAGCTCTGCTATGAAGGTGAACACACAGCTGTGCTCTTCTTCAAAACTGGTGAAGAGAGAAACAGCTTTTAAGTCAAGGCTGGAATTTTTTGGAGGGGAGGAGGGATTGCATCGATGCTTTGCCTTCTTTAATTTGGGAATGTAGTCAGAAAAGCAGAGGGAAACGGCTTGTTCAACCCAAGCTGAACTTTGGGGCAAAGAAGAAAATGCAAATGACTGTTTTGATCCAGAGCAAACCTTCAGGGGCCCCCGAGCCTGAAATGAAGAGTTAGTTTTGTTTCCCTCAAGCTCCCCGTAGGCAGGAAGCCTAAGAAGATGTCCCTCCTACCGCTGATGGAGCCAAACGTGCTCAGGAATTCTGTCTTCCAG
Seq C2 exon
CAGGAGTGGGAACTCGAGTGTCATTGTCCGCTTCCGCCTCCGCTTCGCTCCACAGGACTCCCAGCCCCTCAGCTCTGCCACGGAGGAGGAGGCACTCCGACATGGGCTCGCGGCCGCACTGCAGGAGCAAGGCCTCTCCCTGGCCGCCTTCGGGACGATATCCTCAGCTTCTCTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000458:ENSGALT00000000620:3
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=0.077
Domain overlap (PFAM):
C1:
PF0139015=SEA=FE(21.4=100)
A:
NA
C2:
PF0139015=SEA=PD(39.8=67.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTGTCCAGTTTCCAGGACTC
R:
CTGTAAGAGAAGCTGAGGATATCGT
Band lengths:
246-640
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]