GgaINT0120016 @ galGal4
Intron Retention
Gene
ENSGALG00000016144 | TMPRSS2
Description
transmembrane protease, serine 2 [Source:HGNC Symbol;Acc:HGNC:11876]
Coordinates
chr1:108308361-108309941:-
Coord C1 exon
chr1:108309858-108309941
Coord A exon
chr1:108308481-108309857
Coord C2 exon
chr1:108308361-108308480
Length
1377 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
TTTTTGCTCTGCCCTTGCAGTCG
3' ss Score
9.87
Exon sequences
Seq C1 exon
GCATAAAGAAAATCGTAATAATTACATTATCCATTTTACTAGTCATCTGTTGTGCAATTGCTGCTTTCCTCATCTGGTATTTTG
Seq A exon
GTAAGAATTATTCTTTTTGTTGTTGTTCTGAAAAAAAAAAGATGTAGTAATCTTCTAAAGTTAGAAATATAGATTCTTCTCTTTCATTTTATGCTGAATTAAGGGCAAAGAAGTCTTTGTTACCTGTTTCATAAAAGGTAAACTAATGAGGCTTTTTTAAAAAAGGCCTTATCTGTGGGGTGTTTGTTTTTTAATAGTGCTACTATTGCTTTCCTTTCATTTTGTCAAATGAATACATTTTTGACATCAAGTGATGTCATCAGTTTTTTGAATTCTTTGGAGCAGCTGTATTCTCTGGAAAGCTACAATCTGTCTGGGAAAAGCTGAGGCAGTGCCACTCTACGTTGTAGTAGCTTTACTGAAGAGTAGCTTGACGTCTTGCAAGGGTCTGTGTTTTGGTGGGTAGCTGGCCTGTGACTGTGGGCAACTGATCCGAGAGCACATTTAATTAGGGAAATTACAGTTTCATTTTAGTGTTAACATATAGTAGTATTCTAAATTCTAACTTGGCTTAGCTTCAAGGGAAGAAAGGAGATGAAGTAAATTCATGTGCCTTAACTGCCAAAGTTAAGGTAAATGATCAAGATGCATTTTACTTTGGTAATATGGGACCGTACTTAAAGCTGAACTAATTCACCTGTGTTTATTTGCTTTTTGTGAGGCTTTTGATGCAAGTGGGTTAAAGTTGTGTGAGCCCAGTCCAAGTAACCACCATAAGCTGGAACACAAGTGACATGTTGAACTTGGACGTCATCTGCAACCGGAATGACTGAGCTCTGAAGCCGGGCTATAGCAGTTATGTTCGGCTTAGCCAAGTCTATTTTGTGATAACTTAATTTCCCTTTCAATTGAATAATTTTTCTAAGAAAATTAAAGAACAATTTACTATGTTGTTAGGAACCCCTCTGTTCTGTATGGGAAAGGAAACGGAAACAGAAGGTAGTTCTTTTAAAATTATTAGGCAGTCACGTTGTGTTCTTGGGTTTTTTTTCTTTTTTTTAACTCAGATTTATACAGGGTAAATGTAGTCTTCTTTTAAGCAGGACTGAAAACAGCAAGGTGTGATTGCTTTCTTCTTCTCTGCTTTGTTGGTGTGAAGTTGACTCCTTGTAGAAAACTTGGTAGAGCTTGTTTATTTGGGGGAGGCAATGGACAAAATTCAGTCAGCTGCATCAATGAGTTAATCTGACAAGTGATGTGAAGAACAGAGCAATAAACCTTTGATGTTAGGCAAGGTTTCCTCCCAGCTCTGAGTTTAAGAGTTTGCTGGTGCTTTGCTCTATCAAACTGACATGCTCCTTAAGGTGAGAGTTGGTGGTGATGGCTTGAGGCTAAGCTGATGTTCAGTCTGATGACTTTTTTGCTCTGCCCTTGCAG
Seq C2 exon
TCGAGAATCGTTGTCTCGGATCCTTAATAGAGTGTGGATCTTCGGGAGTGTGCATTTCTCCCTCAGTGTGGTGTGATGGAGTGACTGACTGCCCAAATGGGGAGGATGAAAACCGGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016144:ENSGALT00000026003:3
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=92.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]