GgaINT0120017 @ galGal4
Intron Retention
Gene
ENSGALG00000016144 | TMPRSS2
Description
transmembrane protease, serine 2 [Source:HGNC Symbol;Acc:HGNC:11876]
Coordinates
chr1:108307020-108308480:-
Coord C1 exon
chr1:108308361-108308480
Coord A exon
chr1:108307150-108308360
Coord C2 exon
chr1:108307020-108307149
Length
1211 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
TTTTCTTCCTTTTCTGGCAGTTA
3' ss Score
10.1
Exon sequences
Seq C1 exon
TCGAGAATCGTTGTCTCGGATCCTTAATAGAGTGTGGATCTTCGGGAGTGTGCATTTCTCCCTCAGTGTGGTGTGATGGAGTGACTGACTGCCCAAATGGGGAGGATGAAAACCGGTGTG
Seq A exon
GTGAGTACTGGTGGTCAAGGCAGGAGACCTCCAGCCAGCACTGAAAATTCTTGAGCAAATTCCTTTGTCTAAAGCTTGCCAACTTACCACAGGGCCAGCTTAGGTTCAGCTGTATCTCTAAAATGCTTTGGGATGTTTCAATACATCAAATCTTACATCCCGATCTTCATTCAGTTTCCAGTTGATTGAAAAGCTGAAGCAAAATGACTGGCTCAGAGTTGAGTTTCTTCAAGTTTTAATATTTTAAGAACTTTCTCTTTTAATTTGAATCTGGTTTGTGCAAACCTTAGTATGACGTTGGCTCTGGAATGAACTGTTGTTGTAGAACTTCAGGTGATATTATAGATCTTTTTCCACATATTTCACATTTCTTGTTCTCCCAATGCTTATTTTCAGCCATATATCTGCTTTGTGTAGGAAAGCTTGGTCTGATTAGTGTTTTTCTAACTCAAGAGCTGACAAGAAAGGCTGTGGTGGAGAGCTGAAATTGTAAGGTGAAAATGTCATCTATTTGCCTATTCCAGAGGTGTGGCCTTTTGATGCTAGCACCTGTGTTGTGCTCATGCTGTCTGTGAACTCTTGTTCTGTATGTGCTTCATGCAGTATTAGCATGTTAGAGCACACTGGCATGTGCTCTAACAGCTTTTCTTCTCCATTTAGTTGAATAATGAGCTTTTGGAGAAGATTGTTCAATCCGCTCTTCTGCTTGAACTATTTTGCATTAAATTCTTTTGCAGATAAATACACAATGGGGCATAGAAGATTGCCTCTTGTTACCTTTTTGCTCTACAGCGCTTGTCTGAAGAAATTTCGTGTATTAAGATACAACATAAATAGATTATATCAGATTATATTTTATTTACATGTAAAACATGGTTGTGTAAGTAAATATGAAAAATTGAGTATTGCAATCTTCTGCAGTGTTAGAAAATGGATTAGTTTTGAGAATAAAAACTGAAATGACGAACATTGTATTGCACACTTTCCCTTTAAATTTCTAGCACTTTTAAATTGCCTTACACAAAGGAACTAAATCTTTGTAATGTTTCTGTCTACTTGATATATACTCACAATTTGAATAGATGGCAGCATTAAATTAGCACCAGTTCGTGCATACAAATACCATGGGTGGCAAAAGCTTTAAACAGAGCAGTAGCATGTGTGGTGTTCTTATGTTTTTGGGATTTGTTCTTTTCTTCCTTTTCTGGCAG
Seq C2 exon
TTAGACTTTATGGACCAAACTTCATTCTCGAAGTTTATTCGCCTGTCAGCCAAACGTGGTACCCTGTTTGTCAAGATGACTGGACTGATGATTTTGGAAAGATTGCATGTGAAGACATGGGCTACAATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016144:ENSGALT00000026003:4
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:
PF0005713=Ldl_recept_a=WD(100=92.7)
A:
NA
C2:
PF154941=SRCR_2=PU(40.2=88.6)
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:
CGAGAATCGTTGTCTCGGATCC
R:
ACATTGTAGCCCATGTCTTCACA
Band lengths:
249-1460
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]