RnoINT0153401 @ rn6
Intron Retention
Gene
ENSRNOG00000026650 | Tmprss4
Description
transmembrane serine protease 4 [Source:RGD Symbol;Acc:1305033]
Coordinates
chr8:49481641-49483305:-
Coord C1 exon
chr8:49483192-49483305
Coord A exon
chr8:49481794-49483191
Coord C2 exon
chr8:49481641-49481793
Length
1398 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
CTCCCTAATGTACCTTCCAGTCA
3' ss Score
5.88
Exon sequences
Seq C1 exon
ATGTCCCTCCCTTTCGCAAACCCCGAAGTCCCCTGGAGACCTTCAAAAAGGTGGGGATCCCCATCATCGCGGTGATTCTGAGCCTGATAGCCCTCGGGATTGTGGCCCTCCTCA
Seq A exon
GTGAGTTATAGCCCCCATACAGCTTCACCCCACGCCACCCCCATAGGTGACAGTACAGGAGCCCCCCATGCTCACCCTCACCCCCTCAGCCAGCCACAGACCTCCCCAGTCCTCCCACCCACATGATAGGCAGGTGATCTGCACAAAGTTTTTTTTTGGGGGGGGTGAATCTTCAAACCTCATGTCTCCACCCCTGCTTTGATGGGAACCTTCTTCTAAGTGCAAGGGGAAGGTAAGCAAATCCCCCAGTTCTCCCAGATGGCTTCTTTTCCAGATGGTTGCTATGCACGTGGCACCCATTCCAAACCCACACAGACAGTGGCAGAGGTACCCACCCTCCAGCCGCCTCCTTCCCATCTCCTGCAAACTGACAGCTGGTGGAGGAGCAGGGTGAGGGGGTTGGATGGGGTATCTGGCAACCCTACTATCTGTCAGGCTAGAGAGTATTTCTGCCTGTGGAGAGCGGAGGAGAGGAGGTACTAGGGAAGATGACCAGGCAGGTAGAACCCTCTGCCCACCCCAGCTTGGTCTTCATTAACTCTGATGTCATCTTAGGCAGCACGCTCTGTGACAATGATTTCCAAAGTTACAGCAGGGACTGACCATGGCTCTCACAGCAGGGAACTGAGCATAGGAGACAAGCTTAGGAGACAGGGATGGGCTTCAAGGCTCCTTGTGGAACCTGTGTGCCCAGAAAGAAGTCCACTGAGCCTCTGGAGTATGAAATGCCTTTAAGCATCATGAATAGCAATGAGAAACCTTATGTCAAAAGCCTGGGTTAAAAGCTAAGAGCTGAGACCGTGGGCATGCGGTGCCTATACAACCTGGGCAAGGCTTGCCCGCCCTTGGGGAGCCTTATTTAGAGCTCAGATGACACTTGCTGTAGCAGCAGATACAGATACTACCCATTGGATGGCACAGAGAGCTTCTGCTTGAACCCTTAATTCTATAGTTGGACACTGAGGTTCAAAGCCCAGGCCAGGCAAGCAGGTACAGAGACTGGGATGAGACTCCAGTTCTCTGACTGACCAGGTTCTCATCGTAGTAAGAGTGGGTGTCCACACATCAGACACCACCTCTATCCTTGAGAGCCCAGGGTGGTTGTGAGATGGATAAAACCCAAAATCCTTTCTTCTCAACCTTAGTTGGCCCAGCCTGATGCAGGTGTGTTAGTTAGCTTTACATTACTATAACAAAACACCTGAAGGTAACTCCCAAAAGTTGTGCAAGTGGGCATACACACACACACACACACACACACACACACACACACACACACACCAAAAAAAAGATTCATTGTTTAAATTGACTGCCTGCCTCCTGCCAGCCTGACTTTCAGAAAAAGCAACCCTCTCTGTCCCTAGCCGCCTGCTTGACCCTCCCTAATGTACCTTCCAG
Seq C2 exon
TCAAAGTGGTTCTGGATAAATACTACTTCATCTGCGGAAATCCCCTGACCTTCATTCCGAGGGGCCAGATGTGTGATGGCCACCTTGACTGTGCCTCGGGGGAGGATGAGGAACACTGTGTCAAGAACTTCCCTGAAAAGCCTGGAGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026650:ENSRNOT00000040313:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.103 A=NA C2=0.019
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=63.5)
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:
ATGTCCCTCCCTTTCGCAAAC
R:
TCACTCCAGGCTTTTCAGGGA
Band lengths:
264-1662
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]