GgaINT0120023 @ galGal4
Intron Retention
Gene
ENSGALG00000016144 | TMPRSS2
Description
transmembrane protease, serine 2 [Source:HGNC Symbol;Acc:HGNC:11876]
Coordinates
chr1:108299836-108301081:-
Coord C1 exon
chr1:108300986-108301081
Coord A exon
chr1:108299979-108300985
Coord C2 exon
chr1:108299836-108299978
Length
1007 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
CATGCATGCTTCAATTTTAGGTA
3' ss Score
10.43
Exon sequences
Seq C1 exon
ATACAATACGACCAGTTTGTCTGCCTAACCCGGGAATGATGTTCCAGCCTAATCAGCAGTGCTGGATATCTGGGTGGGGAGCAGAGTACCAAGGAG
Seq A exon
GTAAGCATGGCTCTGACGCCTTCGGGTCTTCCACACAGCCAGTCCTCTTCAGCCTAGGTAAATTGGTAGGAATTGAGAACGAAAAAGGAGGCAAGGTTTCTGTCCATATCAGAAGGCTGAGAGAGCTGGGGCTGTGTAGCCTGGAGGGAAGTAGGCTCTGGGGAGACCTGAGAGCGGCCTTTCAGTATCTAAAGGGGGGATATGAGAAAGAAGGGGAGGGTCTGTTGTGATAGGACAAGGGGAAATGGTTTCAGACTAAGAGATGGGAGATTTAGATTGGATATAAGGAAGAAATTTTTTGCAGTCATGGTGGTGAGGCAGTGGCACAGGTTGCCCAGAGAAGTGGTGGATGCCCCATCCCTGAAGACATTCAGAGTCAGGCTGGATGGGGCTCTGAGCAACCTGATGTGGCTGTAGGTGTCCCTGTTCATTGCGGGGGGGGTTTCACTAGATGGCTTTTAAGGGTCCCTTCCATCTCAAACGATTCTGTCATTATATGAAGGTTGTGGTCTGGGGTAGGGACGGGGCTGCTGAATTTGGGATTTGCTGCCCCCTAGTGCTGGATCGGGAAACTGAGGAGCACTTTTTCATTCGTTACTTTACTCACGTGCTTTTAATAGCTCTATGGCTAATATAGTTGGTTGGGCTTGTAGTAGGCAGGTCCTTATTATCTTGATTTACAGTGCACTAACAGCAATGCAGGGTAACTAACCCCTAGGAAAGGAGTTTTAATGTCAGGGTATTTTCTGCATGATGGGCTACACATCTTAAATGTCCACCCCTGCATTTCTCGTAAGTTAATTTTGTCTTGAGTAATACTAGCCACTGAAATGTAATAGGAAATAATAATAATAATGATAATAGGAATATATGAAATATAGGAAAAAATAGGAATATTAGGAATAATATAGGAAATAATAAATAGGAAATTTAATAGGAGTGTAACCTGATGCTTATTCTAGTATTGTCTTTGTGTTTATGTGTTTTCATGCATGCTTCAATTTTAG
Seq C2 exon
GTAAAACAGCAAATGACTTGAATTATGTCATGGTACCCTTAATAGAACGTTCTACATGTAATTCTGTCTATGTCTACGATGGCATGGTCTTGCCTACAATGGTCTGTGCTGGATATTTACAAGGAGGAATTGATTCTTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016144:ENSGALT00000026003:10
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=FE(14.0=100)
A:
NA
C2:
PF0008921=Trypsin=FE(20.5=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:
TACAATACGACCAGTTTGTCTGCC
R:
CTGACAAGAATCAATTCCTCCTTGT
Band lengths:
238-1245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]