RnoINT0152902 @ rn6
Intron Retention
Gene
ENSRNOG00000058653 | Tmem52b
Description
transmembrane protein 52B [Source:RGD Symbol;Acc:1586337]
Coordinates
chr4:163267450-163268018:+
Coord C1 exon
chr4:163267450-163267774
Coord A exon
chr4:163267775-163267869
Coord C2 exon
chr4:163267870-163268018
Length
95 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGA
5' ss Score
2.81
3' ss Seq
AAAAAAAAAACTCTGTTTAGGAA
3' ss Score
3.54
Exon sequences
Seq C1 exon
GGGGGTGGAGGTAGATTGGCAGAGTGACTTTCAGACTTCAGCGGTCACCCAGGAGCCAAGAGTGTGTAACCAGTTTCCCGATGAACACAAGAACACATCTGGCCACTCACAATCTGCCTTTGACCTATTTCAGGTCCAAGTCTCTCATTATAACTAGGGAAAAAAGTCTAATTCAGAGGACAAACGCGTTCTTCTTGAATGCTGTTTTATTAGGGGCAGAGGAAAAAAGATGAAATACACAGGAAAGTTTGAGACCAGAAAGGAAGTGGAGAGGAAGCAAATGTGGAGACCATGTGAAGAGAAATAAGGAGAAGGAAACTGAAAG
Seq A exon
GCAAGAGGGGACAGAAACCCTAAAATATAAAGTCAAAGGGGATAAGGAGAGGGAGATTGATCATCTACTGCTGAGAAAAAAAAAACTCTGTTTAG
Seq C2 exon
GAATTCTGGACCACCAAGTTCCACATGGCACGGAGGAGGGAAAGGATACAGCAGATGCAGCTGGCATGACACTTCTGGACCAGATGTTCAGCCTAATGACAGCCTGGGCCCAGGTGTTGATGGCCTCTGGCCTGGTTTATTTCATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058653:ENSRNOT00000079337:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGAGGACAAACGCGTTCTT
R:
GCCATGTGGAACTTGGTGGTC
Band lengths:
182-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]