HsaINT0073490 @ hg19
Intron Retention
Gene
ENSG00000148308 | GTF3C5
Description
general transcription factor IIIC, polypeptide 5, 63kDa [Source:HGNC Symbol;Acc:4668]
Coordinates
chr9:135930099-135931481:+
Coord C1 exon
chr9:135930099-135930196
Coord A exon
chr9:135930197-135931398
Coord C2 exon
chr9:135931399-135931481
Length
1202 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
CTCTCCCCCTTTGTCACCAGGAC
3' ss Score
10.84
Exon sequences
Seq C1 exon
CCAGCCAGCTTGTCACCATGCATGACCTGAAGCAGGGCCTGGGCCCGTCGGGGACGAGTGGTGCTCGGAAACCAGCTTCCAGCAAGTACAAGCTCAAG
Seq A exon
GTGGGCGCCCCTGGAGGCCAGGAATGGAGGGGAGGACTTCCCTCTTGGGGCCGGGCACCTTGTGGGTGACACCTGGGGGGCTGTGATTAGGGCAGCTCTGCCCACCGGGGCCTCGGCACCTTGCTTCCTTTTAGGTCAGCCTTCAGACACTGAGGGTGAGAACTCGGGTGCAAAGCCCCAGGGCTGTGTGTGTTGGGGACATCTGGCGAAGAGGTGGTGACAAGTCTCAGGGAAGTCTGGCACCAGCAGCTGCATGTGGTTGTCCTTCTCGAGCCCTTTGGGAGCCTGGGCCCCCACTGAGCCACGTGACCACTCCGGGAATGATCGGAATTGGGCACACACAGGAGGACAGAGCCAGAGCAGGCCATGTGGGCTGCAGCTGTGGCAGGAGCCTCACTGGCTCACGTTTCCGTCAGTGCGGTTGCCCAGCGGGGGTTGGCGGTTTCCAGAGCTGTTCCCACATTCAGGCTCCCGCAAGCCGCTCCACAGCCCTGGGGGAGGCCGAGAAGGGGGCATCCCGCACGGTGGAATCACCTGCTGAGGGAGTGGGTGGCAGAGATGAGTGCAGCAGAGACGGGTGATGCGAGGGACTTGCTGTCCCCCAGTGTCTGGGGCCCTGCCTATTTTCTAGGTTTTTTAGACCTTTGCTGCCTTCCCAGTGAGGGGCGATCATGCCACAGCCTGTGCGGCCTTCCTTCTCGAGGCCTCTCCTAGGAGGCCGTTATCCTTACTCTAGAACTACATGGCTGGGTACGGAAAGGAGAGAGCAAACACTCACTAAGCCCTGCTTTTCCCAGAAAAGATGTCAGGGCAGCCCATAGGGGGACATAGGGTGACAAATTAGCAGCAGTGGGTGAGGGATAAGGTCAGAGTGCAGGAGGGCACAGAGAGCAGAGCCCGGCACAAGGCTAGTGCCAGCCCCATGCCATGGGCGCCATGGCCTGCTGCACGGGCGGGCTCACCGTTTCCAGTGGCCCCAGGAGGGCCTGGGTGCTCCTCTGCCTCTCCCAGAGCCTCCTGGGGAGTTGGACATTGTTTTTTCCCCAACTCCTCCGTGGCCTTCCAGCCTGTCTGCCCAACCTGCTCCTGGTGACCAGCCAGCTCCCTGGAGAGACCCCATGGGAGCCTACATGGAGTCTGCAACACTGGCAGCCCCAGGGCTCTGGCTCACCTTCCCTGTCTCTCTCCCCCTTTGTCACCAG
Seq C2 exon
GACTCTGTCTACATCTTCCGGGAAGGGGCCTTGCCACCCTATCGGCAGATGTTCTACCAGTTATGCGACTTGAATGTGGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148308-GTF3C5:NM_012087:8
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.379 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)