HsaINT0021659 @ hg19
Intron Retention
Gene
ENSG00000177025 | C19orf18
Description
chromosome 19 open reading frame 18 [Source:HGNC Symbol;Acc:28642]
Coordinates
chr19:58483831-58485571:-
Coord C1 exon
chr19:58485467-58485571
Coord A exon
chr19:58483873-58485466
Coord C2 exon
chr19:58483831-58483872
Length
1594 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
CCCCTTTGATGGCCTTTTAGCTG
3' ss Score
6.93
Exon sequences
Seq C1 exon
GCAGTAAACGGTCACAACCACCCAGAAACATCACCAAAGAGCCCAAAGTGTTCTTTCATAAAACCCAGTTGCCTGGGATTCAAGGGGCTGCCTCGAGATCCACGG
Seq A exon
GTGAGTCATTGAATTCCTCATTCAGTGGAGTGAGAATCGTAGCCTGGAGTCCTCTTATCTGCCATGTGAATGTGTACTGTGTGCTTGCTGGTAGAAAGGTCCATAAAATAGAGTATAATTAGATAAACATTTGCTTGGAAATTAGATCTTATGCTCTTCACTCTCTGTTAACTGCTTTCTCTTTAGGGATTGCCACTTTCTTCTCTTTTTCATTTCACTTTAATAAGCGCACACAAAAACCTTGATCCCATCCAGATTACACAGGTATGCCTGTCTGACTTGAATTTGGTGCACATTTGGCAGTAGAGCATGCAAGTCTAGACACAGAAGGTTTGTGAGTGTACAGAATTCTTTTTTTTCTTTTTTTTTTTTTTGAGACAGAGTCTTGCTCTGTCGCCCAGGCTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAAGCTCCACCTCCTGGGTTCACACCATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGCACCCGCCACCACGCCAAGCTAATTTTTTGTATTTTTAGTAGAGACAGGGTTTCACTGTGTTAGCCAGGATGGTCTTGATCTCCTGACCTCATGATCCGCCCGCCTCGGCCTCTCAAAGTGCTGGGATTACAGGCATGAGCCACCATGCCCAGCCGAGAATTCTTTATAAGCATTTTCTATGGTTCCCTTCTAATTTGAGTACTAGAGGATGTTTGTTTATCTTATAACAGCAAAACCAACCCCGACAATCTTTGAAGCTCAGCAACCCTTTGTGGAGATATATGATGCTTGTAAATAATCTCCATTCCATGCAAGGGAAATGCTGTCTGTGTGATACATTTGCATGTAATTTGTGTCCGAGGAAAGGACACTATTGTTGGTTCCCTGGCCTCTCTGCCTGGCTCTCTGATCCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCACTCTGTCACCCAGCTGGAGTGCAGTGGCGCAATCTCGGCTCACCACAACCTCCACCGCCGGGTTCAAGCAATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGCGCGTGCCACCATGCCCAGCTAATTTTTGTATTTTCAGTAGAGACGGGGTTTCACCATGTTGGTCAGGCTGGTCTCGAACTCCTGACCTCGTGATCTGCCTTCCTCGCTGGGATTACAGGCATGAGCCACTGTGCCCAACCCTTGCTGACCTTCTAATGAGGTCGTAGCCCCTTCAACTCTAAGTCTCTCCAGGTCCTTAATTTGGGCAGAGATTTCCCAACTTGTATGACTGCAAAAGGAGACCAGAAACCAAAAGTATCCTGTTCCTAAAGGTCATTCTTCATGACAGGAAGCACCAGGTGCAAAAAGAACAGCAGGCTCACCAGGCTTCTGCAAATTAACCCACACATTGCTGCCAGGCATTGGGAGGAATGTATTAACACATCCCATCTTAGATATTTGGAAGCTGTGTGTTCGGCGTCCTTCTCTAATGCTAAGTTATTTCCTTGTTTTCCCAAGTTCATCTTAAACCATCTTAAAGTCTCTTCTTTTTGATCCCCTTTGATGGCCTTTTAG
Seq C2 exon
CTGCATCCCCTACGAACCCCATGAAATTCCTGAGGAATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177025-C19orf18:NM_152474:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.458 A=NA C2=0.067
Domain overlap (PFAM):
C1:
PF097165=ETRAMP=FE(27.3=100),PF111393=DUF2910=FE(31.2=100)
A:
NA
C2:
PF097165=ETRAMP=FE(10.9=100),PF111393=DUF2910=FE(12.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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)