GgaINT1028057 @ galGal4
Intron Retention
Gene
ENSGALG00000012483 | TMPRSS6
Description
transmembrane protease, serine 6 [Source:HGNC Symbol;Acc:HGNC:16517]
Coordinates
chr1:51331337-51331678:+
Coord C1 exon
chr1:51331337-51331450
Coord A exon
chr1:51331451-51331561
Coord C2 exon
chr1:51331562-51331678
Length
111 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TCTCCCCTTCATCTTTACAGGGG
3' ss Score
10.26
Exon sequences
Seq C1 exon
TGTGCCCTGCAAAGTTCCAGTGCCAAGAGGACAGCACCTGCATTGAGTTCAGCAGGGTCTGCAATCAGCAGCGGGACTGTGTCAACGGGAGTGATGAGGAGCAGTGCAATGAAG
Seq A exon
GTAAGGAAGGGACAGGGAGGGGCTGACACATGCCTTGTCCTCCTCCCAAACCAAGGCTGTCGGTAGTGTAGCTCACATTCCCTCAGCCCTGTCTCCCCTTCATCTTTACAG
Seq C2 exon
GGGTCCCCTGTAGTCCTTTCACCCACCGTTGTGATGATGGGACTTGCGTAAAGAAACCCAACCCACTGTGTGATGCCACTGTGGACTGCAAGGATCTGTCTGATGAGAAGCACTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012483:ENSGALT00000020394:12
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=92.3)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=95.0)
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:
CCTGCAAAGTTCCAGTGCCAA
R:
CGCAGTGCTTCTCATCAGACA
Band lengths:
226-337
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]