RnoINT0153423 @ rn6
Intron Retention
Gene
ENSRNOG00000000184 | Tmprss6
Description
transmembrane serine protease 6 [Source:RGD Symbol;Acc:1307138]
Coordinates
chr7:119664514-119665602:-
Coord C1 exon
chr7:119665504-119665602
Coord A exon
chr7:119664628-119665503
Coord C2 exon
chr7:119664514-119664627
Length
876 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGC
5' ss Score
8.15
3' ss Seq
ATTGTCCTCTACTCCCACAGTCT
3' ss Score
8.25
Exon sequences
Seq C1 exon
CCTGCCCTGGAGAGTTCCTCTGCTCTGTGAATGGATTGTGTGTCCCTGCTTGTGACGGAATCAAGGACTGCCCCAACGGCCTGGATGAGAGGAACTGTG
Seq A exon
GTAAGCAGCCTGATGCCTTCCCTCCTCTCTCTCTGCACAGAACTAATTCTACCCCACGTGTGGTTCCTCCCTGTGAGAGCACCCAGGAACCCAGGGTTCCTGCACTGTCTCAGGATGGCAATGGGAAAAAGTTGCCTCCCCAGAGCCAACCAACCCCCATGCCACACACGCTGAGGAAGTGTCTGGGACACACTGTGACCCCCCCCCCCCAGCCCAGATTTCACCCTTCTTCATAAGCAAATGTGCCAGCTGTCTGTCTTGATTTATCTTCTGGGAAATAACCGAGAAGGGGGGGGAAGGAAGGAGGTAGTGGGAGGGGGAGAGGAACGAAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAGCCGCAAGCGCAGACCAGGCAGGGATGACTGCTGGCTAAGGCTTTTTGGGGACTGGGGTCCAGGGTAGGGAATCCTGTATCACTCTCCTTGAATTGGGTGAGGGCCTCATCCCTCCAGCCTGAGGCAGAAAACTGGTCCCCAGACTAGGGCTCTCAGGAAATGCTGGTTTCTGACCCCTAGAGTCATTACCTAGGATCAGAGAATCAAGGTATCTGGGCAGTGATGCCCCCCACCTGCCTTGTCCATTCTCAGTCTGAGGAGAGAATCAGGGGAAGAGATTTCATATTTGACCCTGAATCTCTGGGGACCTCAGGCCCATCAGTCACTGCTGTACCCATCAATGAAATGGGCCTTTCAAGGATTGCTGTGAGACCGGTGTATAGAACTGTGATGGGTGATGGTGGACACGTGTAATGCAGGGGGCACTGCTGCCACTGTAAAGCCCAGCCTGGTTCCCTCCTCCAACCATTGTCCTCTACTCCCACAG
Seq C2 exon
TCTGCAGAGCCATGTTCCAGTGCCAAGAGGACAGCACGTGCATCTCACTGCCGAGAGTCTGTGACCGGCAGCCCGACTGTCTCAATGGTAGCGACGAAGAGCAGTGCCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000184:ENSRNOT00000000200:12
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=PD(94.1=94.1),PF0005713=Ldl_recept_a=PU(0.1=0.0)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=92.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGAGAGTTCCTCTGCTCT
R:
CTTCTTGGCACTGCTCTTCGT
Band lengths:
208-1084
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]