DreINT0021837 @ danRer10
Intron Retention
Gene
ENSDARG00000104035 | TTC16
Description
tetratricopeptide repeat domain 16 [Source:HGNC Symbol;Acc:HGNC:26536]
Coordinates
chr5:65289349-65289681:-
Coord C1 exon
chr5:65289591-65289681
Coord A exon
chr5:65289493-65289590
Coord C2 exon
chr5:65289349-65289492
Length
98 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TACATTCCCATTACCCACAGACT
3' ss Score
8.11
Exon sequences
Seq C1 exon
TTATGAAACAGGTATTATTTCCATGGCACATTCTCAGTTTGATAAGGCCGTGTCCTGTTTCTCAAAGGCCATAGTGCTCCAGCCACATAAG
Seq A exon
GTAAAAACCTTACTCTATTATGCAATCAATACAGTAATCCCTATTTATGGTATCTTCCCCTGAATATTAATCACATTTTACATTCCCATTACCCACAG
Seq C2 exon
ACTCAGTTTTATGTCCAGCGGGCAGAAGCATATCTTCAACTGTGTGACTTTCAGTCTGCAGCACTGGACTACAAACATGCCAGAAGACTAGAACCACAAACTGAGGCCTACCATCAACGACTCGCCTTCATACACTACCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104035:ENSDART00000170677:3
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:
PF134141=TPR_11=FE(44.1=100)
A:
NA
C2:
PF134141=TPR_11=PD(47.1=65.3),PF0771912=TPR_2=PU(17.6=12.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCGTGTCCTGTTTCTCAAA
R:
AGTCGTTGATGGTAGGCCTCA
Band lengths:
168-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]