HsaINT0021658 @ hg38
Intron Retention
Gene
ENSG00000177025 | C19orf18
Description
chromosome 19 open reading frame 18 [Source:HGNC Symbol;Acc:HGNC:28642]
Coordinates
chr19:57974099-57974534:-
Coord C1 exon
chr19:57974312-57974534
Coord A exon
chr19:57974204-57974311
Coord C2 exon
chr19:57974099-57974203
Length
108 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCT
5' ss Score
6.52
3' ss Seq
CAAAAAGTTTTCTTTTCAAGGCA
3' ss Score
5.12
Exon sequences
Seq C1 exon
AGTAGAACTTCTTGATTCCTCAGATAAATAGAGGACAGATGCTGGACTGTAGCTAAGTATTTCCTTTCATCTACGGGATAAAATACTGATAATTTGAGAGTGATGGACAAGGTTCAGAGTGGTTTCCTCATTTTGTTTTTGTTTTTAATGGAATGCCAACTTCATTTATGCTTGCCGTATGCAGATGGACTCCATCCCACTGGAAACATAACAGGCTTACCAG
Seq A exon
GTAGCTTCAACCACTGGTTTTATGTGACTCAGGGAGAATTGAAAAGCTGTTTCAGGGGAGATAAAAAGAAGGTAATTACATTTCACCGCAAAAAGTTTTCTTTTCAAG
Seq C2 exon
GCAGTAAACGGTCACAACCACCCAGAAACATCACCAAAGAGCCCAAAGTGTTCTTTCATAAAACCCAGTTGCCTGGGATTCAAGGGGCTGCCTCGAGATCCACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177025:ENST00000314391:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.138 A=NA C2=0.519
Domain overlap (PFAM):
C1:
PF097165=ETRAMP=PU(29.7=92.7)
A:
NA
C2:
PF097165=ETRAMP=FE(27.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACAGATGCTGGACTGTAGC
R:
ACACTTTGGGCTCTTTGGTGA
Band lengths:
242-350
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