RnoINT0068488 @ rn6
Intron Retention
Gene
ENSRNOG00000010981 | Gtf3c5
Description
general transcription factor IIIC subunit 5 [Source:RGD Symbol;Acc:1305173]
Coordinates
chr3:7145722-7146736:-
Coord C1 exon
chr3:7146594-7146736
Coord A exon
chr3:7145902-7146593
Coord C2 exon
chr3:7145722-7145901
Length
692 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
CTTCTTTCCTTCTCGTGCAGCTC
3' ss Score
10.38
Exon sequences
Seq C1 exon
GTTACAGAAAATTGTTCACCGCAATGATGGGACAGAGAGTGTATGCACAGAGAAAGATGGGTGGTGCCTCCCCAAGACCACAGACCACCTGAGAGACACTATGTCACTCATGATTCTACAGACCATCCGCTCTGAGAGGCCTG
Seq A exon
GTGAGAGCCACTTGCAGGGAAGCCTCAGACCTGTTCAAAACAAGTCTGACAAAAGCTGACAAGAAGCTCCAGAGACCTTCCTACTATCTATCTATGGTAGAGGGGAGGTCTGTGAGCCAGCACTCAGCAGTGACACTGAACATGTGCCGACAGGAGGGAAGCGATGCGACCTTCCCATACAGGAAGGACAGCTCTGCCCATCCTTTCCCATGGGGCTATGTGGCCCATGGCTCTGCACTGCATTTCTCAGCCTGTTGCTCAAAACAAAGCCTGAGCTAGCCCCTAGGGCACTGGAAAGTGAGGTGTTTGCAAGGCAGGGATCTACAAGGGGACCTGAGAGCAATGAGAAGCTCTTGGGAGGGACTCCTTCCAAGCCGGGTAGCAGGCATCTGAGTAGAGCAGGCTTCCTGGCGGTGTTGGGGTGTAGGCTTCACTCTTGGGAGCCCAGTGAAGGCTTTGAAGCTTTTCTGGGAATAATGGTGTATGCCCTCCAGGTACACTGGGCCCCAGGCTGCTCATGGTTCTCCCCAGAACATGGATTCAAACATGCCTTACTTGTCTGCACCCCGCCCTCTTGGTCCCCGCCCTCATGCTTTGCGTATTATTTGAGCCAGCTTCCCATCACAGTGAGTGGGCTCTAGGGCCACCTAGAAGCCTGCGTTGGAACACAGCCTTCTTTCCTTCTCGTGCAG
Seq C2 exon
CTCTGTTCTCCAACACAGGTAAGGCTGATCATGGGAAAGAGCAGCTGATGTTTGAATCTGGAGAGGAGGAGGAGGAGGAGGAAGAAGAGGAGGAGTTCAAGCCCTCAGATGGGAGTGAGAATGAGATGGAAACAGAGATTCTGGATTACGTGTGAGGAAGCACTGCTCCCGGGTGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010981:ENSRNOT00000015068:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.902
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTACAGAAAATTGTTCACCGCA
R:
CACCCGGGAGCAGTGCTT
Band lengths:
318-1010
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]