GgaINT0123989 @ galGal3
Intron Retention
Gene
ENSGALG00000004992 | TTC16
Description
NA
Coordinates
chr17:5558951-5560046:-
Coord C1 exon
chr17:5559583-5560046
Coord A exon
chr17:5559093-5559582
Coord C2 exon
chr17:5558951-5559092
Length
490 bp
Sequences
Splice sites
5' ss Seq
GAGGCAAGT
5' ss Score
3.32
3' ss Seq
ATAGTCCTGCTTCTCTGCAGACT
3' ss Score
7.93
Exon sequences
Seq C1 exon
GTTTTGTGGCACAGGCTGGTGAGACAAGGCCAGGAGGCCAAAGCCCAGGCAGTGTTGAAGGCCTTGCGTGGAGACCTGCGTGGGGCCCTGTACGAGATCAGCTTTGCTATTGAAAGTGACCCGTTGGCTGCTGAATTCTTCACCCTCAGGTAGTGATCGTGTTGCTGCGGGTGGTTAGCTGTGCTGCTGCCTGAGTTTCCTTTCTCTGTCCCTGTGTCACAGGGGGACCCTCCTCCGGCAGCTCAAGGACTTCAGTGCAGCCAGCAAGGACTTGGCCAGGGCTAGGGAGCTGAGTGCCCTGGGGAGCCCAGAGGCCCGGGAGGCTCAGAGGCAGCTGGTGCTCACCTACAATGATTGTGCTGTGCGCTGCTATGCCCTGGGCCAACTTGATGAGGCTGTAAAGCTCCTTGGTGAAGCTCTGCAAAATGAAAAGACAGAGCAGGGACTCTACGCCAACAGAGGAG
Seq A exon
GCAAGTGGCTGGGCTGGTGGTCACAGCAGGGTAATGTCAGTGGCTTGGGGATAATGCTGGGGTGTCACACAGCAGAGGCTGGCACTCAGGCAGCAAATCTCTTCAGAGAGAGGCCTTGCTCTGCAGCCCTGTGCTAGGGACCTGTGGCAGAAGCAGGTGGTGGGGTAGCTGGGTTCTCCCTTGATCCTGGTCCCAGTGCACTCTGAGGATACATTCAGTTTCAGCAGTGGGAAGGGGATGAGGAGTGGGGATTTGCCACTGGTGCTACTACTCCTTCTCCATGTAGTCTGTTCTGGGGCACAGCTGGCAACTGCTGCTCTCCCCCACATCAGGCTGCATCTGCTGGTTGTTGCAGTGCAGAGCTTTTGGCTAGTGATGCTGAAACCTGGGGTGGACTGGACATGAGGTGTGATTCCCACTGGCTCTAGACAAAGCCCTGGGGCAACAGCCATCCCCTCTCAGTTGCTGAGATAGTCCTGCTTCTCTGCAG
Seq C2 exon
ACTGCTTCTTTTGCCTGGGGGAGCTGACCTATGCGCTGGCGGATTACCAGCAGGCGCTGGAGCTGAGTCCAGGGAACCGCGCTGTGCAGGAACGTGTTGCAGCTGTGTTGCATGAGAAGGGCTGTCAGGACTTGGCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004992:ENSGALT00000007997:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134291=TPR_15=PD(0.1=0.0),PF134241=TPR_12=PD(86.6=86.6)
A:
NA
C2:
PF134141=TPR_11=PD(33.8=47.9),PF134141=TPR_11=PU(23.5=33.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAAGGACTTCAGTGCAGCC
R:
CCCTTCTCATGCAACACAGCT
Band lengths:
344-834
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]