GgaINT1028750 @ galGal4
Intron Retention
Gene
ENSGALG00000004992 | TTC16
Description
tetratricopeptide repeat domain 16 [Source:HGNC Symbol;Acc:HGNC:26536]
Coordinates
chr17:4930488-4930936:-
Coord C1 exon
chr17:4930807-4930936
Coord A exon
chr17:4930703-4930806
Coord C2 exon
chr17:4930488-4930702
Length
104 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
TGACCCGGCCCCCTGGGCAGCTG
3' ss Score
7
Exon sequences
Seq C1 exon
CATCGTGTGCCTTGCTGCCCTCGGTGAGTTCCCAGAGTTCCTCCAGATGCTTAACAGAGAACTGGAGGAGGATGTGAGGAATCCTGATATGTATGTGCTCCGTGCCTTCTTCTACAAACGCTCTGGGCAG
Seq A exon
GTATGGCCATGTTGGTCCCCCTGAGGGACTCTGGCTGCTCTTCCTGGATATGTGGGCCACAGTGGGAAGCACCAGGTCCTGAAGTGACCCGGCCCCCTGGGCAG
Seq C2 exon
CTGGCCCTGTGCCTCCAGGACATCCAACAGGCCCTGAAGCTGGAACCTCAGCACAGAGCTGCCCAGGTTTTGTGGCACAGGCTGGTGAGACAAGGCCAGGAGGCCAAAGCCCAGGCAGTGTTGAAGGCCTTGCGTGGAGACCTGCGTGGGGCCCTGTACGAGATCAGCTTTGCTATTGAAAGTGACCCGTTGGCTGCTGAATTCTTCACCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004992:ENSGALT00000007997:5
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=PD(15.7=18.2),PF134291=TPR_15=FE(33.9=100)
A:
NA
C2:
PF134291=TPR_15=FE(53.4=100),PF134241=TPR_12=PU(12.2=13.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCTCCGTGCCTTCTTCTAC
R:
AAGAATTCAGCAGCCAACGGG
Band lengths:
242-346
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]