RnoINT0157553 @ rn6
Intron Retention
Gene
ENSRNOG00000034089 | Ttc21a
Description
tetratricopeptide repeat domain 21A [Source:RGD Symbol;Acc:1308806]
Coordinates
chr8:128652476-128653850:+
Coord C1 exon
chr8:128652476-128652557
Coord A exon
chr8:128652558-128653699
Coord C2 exon
chr8:128653700-128653850
Length
1142 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TTTCTGCCCTTTCCTTTCAGACA
3' ss Score
11.92
Exon sequences
Seq C1 exon
GTGCTGGCTGACCTGATGTTTAGAAAACAAAACTATGAAACCGCCATCAATCTCTACCGCCAAGTGCTGGAGAAAGCTCCAG
Seq A exon
GTAACTCCGCCCAGCACGCTGCTTCCCCACCCAGCCCGCACCGGCTACCCCAGAGAAGGGTGGGCCTTCTCCCCTCCTTCCTGCATGCTCAGAGGAAGCTCCTTTCTTCCCAATTGTTCCCAGAGAGGCAGGAAACAGATAAAGACCCAGAACGTGGCAGCCCTTCCTGAGTCAAAGGGGCCAGTTCCTGGACCCAGGCACTTGGCACTGGAGCCAGGACAGCCCATCTGTCCCCATATCACTGCAGCCACTGGGAGTGAACTGTCTCCTCTACCGTCACACCCACTTGGAAGGCACTGGACTGGGGTGGGGTGGGGCAAAAAAAAAAAAAAACAGAAAGAAAGACACTAGATGTTCTTTCTTGGTTGTAGCTGCACCCCTACTTGCTACCAAATGAAATCGCTGCTCCAGCGGTCAAACCTGAAAACCAAGCCATGGGCCTAGCCATTCCATGGTAGTCACCACGGGCCCAGCAACTGTTGTTAGGTATATAGCCTTAGAGTCAAGGTACCTGGGTCTGAACCCTCATGTCACTTAGCTGTGTGACCTTTGAAAAACTACTTCATTCCTCCATGTTCTTTGTCCTCGTCTGTCAAATGGGGACAGAAAGATTATTTACCTATAGCTAAGCTACAGCACACACACACACACACACACACACACACACACACACACACACACAGAGTGGCTAGAGGTCAGGGGACAGCAGTGGGTGATCCTGCCCTACCACCTTTATCCTCCTTCCCTTGGAACAAGATCTCTAGCTGAACTTGTACTTGGCCTGGAGCCAGCAAGCCTCAGACATCCTCCTGCCTGTGACCTCCAGAGCCTGAGGTTCAGAGACGCTCACAGCCCACACCTTGCTTTTTAGATGGGCACTGGGAATTTGAACTCAAGTCCTCATGTTTGTCCGGCAAGTGCTTTGCTGACGGAAGCATCTCCCAGGCCCCTACTGTAGCTATTTCAAGCACTATATAATTTACTCATGCTTGCATACAGACTCATCTATGCTCGGCCTAAACAAGTAGTGTCTCCTAGTCCCTCCTCAAGGTCCAGCACCCCTCCCCCATCAGACCCCGTCACACCAGCCTGATGCAGTTATTGGCCACCACATGCTGCAGATTTCTGCCCTTTCCTTTCAG
Seq C2 exon
ACAATTTTTTGGTACTGAATAAACTGATCGACCTGCTACGACGGAGCGGCAAGCTTGAAGAGGCCCCTGCTTTCTTTGAACTGGCCAAGAAGGTGTCTAGCCGGGTGCCTTTGGAACCAGGGTTTAACTACTGCCAAGGCATTTACTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000034089:ENSRNOT00000043831:22
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:
PF145591=TPR_19=PD(5.9=14.3),PF145591=TPR_19=PU(38.6=78.6)
A:
NA
C2:
PF145591=TPR_19=PD(59.6=66.7)
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:
GTGCTGGCTGACCTGATGTTT
R:
CAGTAAATGCCTTGGCAGTAGT
Band lengths:
230-1372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]