DreINT0169077 @ danRer10
Intron Retention
Gene
ENSDARG00000012368 | ttc21b
Description
tetratricopeptide repeat domain 21B [Source:ZFIN;Acc:ZDB-GENE-031010-34]
Coordinates
chr9:50141929-50142448:-
Coord C1 exon
chr9:50142319-50142448
Coord A exon
chr9:50142087-50142318
Coord C2 exon
chr9:50141929-50142086
Length
232 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
TCTCTTTATGTGTTGTACAGGCG
3' ss Score
7.5
Exon sequences
Seq C1 exon
TCTCCAGCTCTCAGTCAGCCTTCTTCACCTCAGCTGCAGCATGCCGCATCTGTGCTGGATACCGTGATGAAAGTAGTGCCTGGATTACTGCAGGCTGTCTTTCTGATGGCCAGAGTCCGATTTCAGTCAG
Seq A exon
GTAATATCACTTCAGACTTTGAAGTAATGGTGGAAAATGGAAAGGAAAATAACCCTTGGGGAAATTTATTTTGAGGTTCATTAGCCTGGAGACTATTTCCTATAACTAAGCTCCAATAATTACCTGGTGTGATAACCCCTATAATTTCTTTTTCTCTTTTAAATGATTACATTTTTTGACCTCAGAAATAATCGACTGATCTAAGTTTATCTTCTCTTTATGTGTTGTACAG
Seq C2 exon
GCGATATCGATGCGGCCCAGAGCAGCCTGCAGCACTGTTTGGATCAGAACCCAGCTCACGCTGATGCCCATCTCCTCATGGCTCAGATTCATCTCATTCAGGGCAACTACAAACTCTCCTCCCAGTCTCTGGAGCTCTGCCTCAGCCACAACTTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012368:ENSDART00000044270:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134321=TPR_16=PU(18.2=22.7)
A:
NA
C2:
PF134321=TPR_16=PD(80.0=83.0)
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:
TCCAGCTCTCAGTCAGCCTTC
R:
CAAAGTTGTGGCTGAGGCAGA
Band lengths:
284-516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]