GgaINT1028070 @ galGal4
Intron Retention
Gene
ENSGALG00000000458 | TMPRSS9
Description
transmembrane protease, serine 9 [Source:HGNC Symbol;Acc:HGNC:30079]
Coordinates
chr28:621787-623097:+
Coord C1 exon
chr28:621787-621958
Coord A exon
chr28:621959-622825
Coord C2 exon
chr28:622826-623097
Length
867 bp
Sequences
Splice sites
5' ss Seq
CGAGTGAGT
5' ss Score
8.49
3' ss Seq
TTCAGACTGTGCATTTACAGGAC
3' ss Score
6.94
Exon sequences
Seq C1 exon
AGTGCGGAGGACGACCTGGCCTATCTAAACCCAACAAGATTGTGGGAGGAACCGATGCTTCCAGAGGGGAGATCCCCTGGCAGGTCAGCCTGCAGGAAGACTCGATGCATTTCTGTGGGGCAACGATCATTGGGGACCGCTGGCTGCTGTCAGCTGCGCACTGCTTCAACGA
Seq A exon
GTGAGTCCTGCCTGCTGGTGCAGGTACAGATAGGAAAAACTGGCTGTAACATAAGAAATAAACACACAGTGAGAGTGGTCGGGTGCTGGAATGGGCTGCCCAGGGAGGGGGTGGGCCATTGTATTGGGAGGTGCTCAAGAAACGTTCCGATGTTGTACGGAGAGACGTGGCTCAGTGGGCACTACTGTTGGACTGGAGGTCTCAGACATCTTTTCCAACATTGGTGATGCTGAGATTCTATAATCAGCTCTTAGAGAGAAGGTGGGCAGTTCATGATGCAGTCCATTGACGTGACCTATAGATGGCCTAGCACAGAGCATGGGTAGCAAGAGCACAATGTTTGCCAACAACAATAAATCCTGAAAGCAAAAAAGGTGGGGAGATCAGCTGGGAGTTCCAGGAGGACCTCATGTGTTAAAACAGCTGGGCAGGAAAACAGAAAGTGAAACAAGCAGCTCTGCATCGTTAAACAGTGGACCTTTTCACCGTATGAAGTGATGAATGTTTGAAGTTCACATGGGGTTAAAAAATGAGAAAACAACTAGAAAAAACACTAATAGAAGCCACCCATCCAGGGATTCTGGGTATAAACACCATCTGCATGCTGCTGTGCTCCTCAGGTCACACATGTTGGGGCTGGGGGAGGATTACCACACACTTTCCTGCTCTTCAGCACACATCCAACAGGTGCCACTGCTGGAGGCAGAATTCTGGGGGCACATCTGTGTGCTCTGGGCTTTCCTTTGGCAAAGCGAGGCTTCAAACACCAACCCTTTAATGCTGCCTGCAATTTAAATGGCCTGCCAGCTCAGAATTCGGGATAGGTGTATGTGTGCAAGCACATGTATTCAGACTGTGCATTTACAG
Seq C2 exon
GACAAATCCGGAAGAGATTGAAGCCTACATGGGAACGACATCACTAAATGGAACAGATGGGAGCGCAGTGAAAGTCAATGTAACACGAGTGATCCCGCATCCTCTCTTCAACCCCATGCTTCTGGACTTTGATGTAGCTGTACTTGAGCTGGCAAGACCCCTCGTCTTCAACAAATACATCCAGCCCATCTGCCTCCCTCTCGCTGTGCAGAAGTTTCCTGTTGGCAAGAAATGCATAATTTCTGGGTGGGGAAACCTCCAAGAAGGGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000458:ENSGALT00000000620:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.385 A=NA C2=0.111
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(19.3=75.9)
A:
NA
C2:
PF0008921=Trypsin=FE(39.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTGTGGGAGGAACCGATGC
R:
AAACTTCTGCACAGCGAGAGG
Band lengths:
352-1219
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]