RnoINT0157541 @ rn6
Intron Retention
Gene
ENSRNOG00000034089 | Ttc21a
Description
tetratricopeptide repeat domain 21A [Source:RGD Symbol;Acc:1308806]
Coordinates
chr8:128639290-128640217:+
Coord C1 exon
chr8:128639290-128639490
Coord A exon
chr8:128639491-128640087
Coord C2 exon
chr8:128640088-128640217
Length
597 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGG
5' ss Score
6.25
3' ss Seq
ATCTCCTGGTGTTCCCACAGCCC
3' ss Score
9.54
Exon sequences
Seq C1 exon
GTGCTGGTTTTCCTGCAAGCCCTTGTAGCAGCTAAGAAGCAAAAGCTGGAGCAAGAGGCCACGGCGCTCCTGAAGGAGGCAGTGGAACTGCATTTCTCCAACATGCAGGGCCTGGCCCTGAGCCCCGAGTATTTTGAAAAGCTGGACCCCCTCTTTCTGGTCTGCATCGCCAAGGAGTATCTGCATTTCTGCCCGAAGCAG
Seq A exon
GTTAGGGGACCCATTTTCATGGCAAAGGCCTAAAGTACAGGCGTGGGTGAGTTGAAGCCAGATGACCTCAGAGGCTGTTCTAGTACAGAGTTGGATGTCCCATGTGAGCTCCCAGGCCTTAGAGAAGGTGTGGTGCGGGGACCATACTTGGGTGGGTTGGTACACTGGCCATGCATCTGTCTATATCCTGACAGAATCTATAATCCCAGCACTGGGGAGGTAGAAGAAGGAAGATCAGAAGTTCAAGAATGTTGGTGCTGGAGAGATGGCTCAGTGGTTGAGAGCACTGGCTTCTCTTCCACAGGTCAAGGGTTCGATCCCCAGCACTGTCTATACCTGTATGGGGTCCAGTTTCCTCTTCAGGTGTGCAGATGGACATGCAGACAAAACACAACAAATATATTGTGTATATGTGTGCACAACATAAATAAGTAAATCTAAAAAAAGAAAGAGCATAAGTTTGTCCGTTGTTGCGTAGGGAGTTTGAGGTCATCGTGGGTTATGTGAGACCCTTTCAGGGGAAAATTTTTTAGAAAGAAGAGGAAGTGGGAGAGAGAATAAGGCAAATCACACATTAATCTCCTGGTGTTCCCACAG
Seq C2 exon
CCCCGGTCACCCGGCCAGCTCGTGTCTCCACTTCTTAAACAAGTCGCCATGATCTTGAGCCCTGTAGTAAAGGTGGCCCCGGCCATGATGGAGCCACTGTTTGTGACAGCTCAGGTCAAGTTCCTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000034089:ENSRNOT00000043831:11
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:
PF128952=Apc3=PU(2.3=4.5)
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:
CTGGTTTTCCTGCAAGCCCTT
R:
TGAGAGGAACTTGACCTGAGCT
Band lengths:
327-924
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]