HsaINT0021662 @ hg19
Intron Retention
Gene
ENSG00000177025 | C19orf18
Description
chromosome 19 open reading frame 18 [Source:HGNC Symbol;Acc:28642]
Coordinates
chr19:58469805-58472919:-
Coord C1 exon
chr19:58472759-58472919
Coord A exon
chr19:58470086-58472758
Coord C2 exon
chr19:58469805-58470085
Length
2673 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTG
5' ss Score
6.13
3' ss Seq
ACATCATTTCTACATTTTAGTTA
3' ss Score
6.85
Exon sequences
Seq C1 exon
TCGACTGGCACAGGCTGAGGAAAGACAACAGCTCGAGTCACTTTATAAGAACCTCAGGATACCGTTATTAGGAGATGAAGAAGAGGGCTCAGAGGACGAGGGTGAGTCCACGCACCTACTTCCAGAGAACGAAAATGAGCTGGAAAAGTTCATCCACTCAG
Seq A exon
GTAGTGTGACCTGTAAGAGCTATTCGCAGGAAAGCCAAGCTGGCAGCGGCAGCTTGCGTTTCTTTTCTTTCTTTCTCAGCGGTGGCTTGCATTTCTTTTCTTTCTTTCTTTCCTTTCTTTCTTTCTTCCTTCCTTTCTTTCTTTCATTTTTTTTTTAAGACGGACTCTTACTCTGTAGCCCAGGCTGGAGTGCAGTGGCGCGATCTCTGCTCACTGCAAGCTCCGCCTCCCAGATTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGAGTACAGGCGCCCGCCACCATGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATTTTAGCCAGGATGGTCTCGGAAGGCAGCTATGCTCACCACTATACCACCAACGCTCGGGTGCCAGGATGGTCTCGATCTCCTGACCTCGTGATCCGCCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCTGGCCTGTGGCTTGGTTTTCAAAGGCAAAGATAAGTGGGAGTTAAGGGAGTTTGAAGTAAGAGAGACAAATATTCACAGCCACACTTACGGAAATGAACCTTTCTCATCAAATCTTACAGAGGGGTGAACAGCTGTGGGGTTGCTCAGTTCCTTTTGCAGGGCAATTCCACGGATCTAACAGAGTTCAGGAAACAAACTTTTCCCAGCACAAAACATGTTTCCGTTAAACATACTCATTACCGTGATGTTATCCTGCATTCAGAACACAGACACGCAGATGTTTCACCTGCACCATCTGTCTCCATCTGACGTGAAAATGGGATCCAGACCCACAAAATAGAGGTCACTACCCCAGGGTAAAATTTCCCAGCATGCCATGCCCACCACAGACATGTTCTGCTGTCCTTGTGAGAAGAGGATGAAATTGATTATTTAAAACTGATTTTGTAGAAGTTCTTTTTTTTTTTTTTTTTTTTGAGGCGGAGTCTTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGCATGATCTCAGCTCGCTGCAAGCTCTGCCTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTATAGGCACCCGCCACCACACCCAGCTAACTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTTGTAATCCACCCACCTCAGCCTCCCAAAGTGCTGGGATTACAGGCATAAGCCAATGCACCCCGCCTGTAGAATTTATTTTATTTATTTATCTTTTTTTTTTGAGACAGAGTCTCCCTATGTCACCCAGGCTGTAGTGCAGTGGCGAAATCTTGGCTCACTGCAACCTTTGCCTCCTGGGTTCAAGCAATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCGTGCACCATGACCCCTGGCTAATTTTTGTATTTTTAGTAGAGACGGAGTTTCACCAGTTAGCCAGGCTGGTCTCGAACTCCTGACCTCAATTGATCCACCCGCCTCGGCCTCCCAAAGTGCTAGGAGTACAGGTGTGAGCCACCGCTCCTGGCCTTTTTTTTCTTTTTTCTTTTTTTTTTTTTTTTTGAGGCAGAGTTTCACTACGTCACCCAGGCTGGAGTGCAGTGGTGCAATATCAGCTCACTGAAGCCCCAACCTCCTGGGCTCAGTTAATCCTCCCACCTCAGCCTCCTGAGTTGCTGGGACTACGGTGCATGTCACTATGCCGGGCTCATTTTTGTTTGTGGTTTCTTTTTGAGATGGAGTCTCGCTCTGTTGCCCAGGCTGGAGTGCAGTGGTGTGATCTTGGTTCACTGTAACCTCCGCCTCCTGGGTTCAAGTGATTCTCATGCTTCAGCCTCCCGAGTAGCTGGGATTACAGGCACATGCCACCACGCCTGTCTTATTTTTGTATTTTTAGTAGAGATGGGGGGTCTCACCATGTTGGCCAGGCTGGTCTCGAACTCTTGACTTCAAGTGATCCGCCCTGTTCAGCCTCCCAAAGTCCTGGGATTACAGGCATGAGCCACTGCGCCGGGCTAGTTTTTGTATTTTTAGTAGAGACAGTTTTCACCATGTTGCCCAGGTTGGTCACAAACTCCTGGGCTTAAGAGATCTTCCCGTCTTGGCCTCCCAAAGTGCTGGGATTATAGGTGTGAGCCACTGAGCCCAGCCTAGAAGTTCTGAGATTCGTGGGTACCTGTTTAAAAAATTCTAGAGAGAAAACTATAGAGAGTGTAGTGTGTGATTCAGACATACTAACCATCCTCACATGGACTCACTCTCTAAAAACTCCAGACATAGCCAGAAAGAGGCAGAACAGCCACAGCAGGAGAGATCACTGATGCTCACTGAGGCAGAGGACTTTGTCATAACCTGTAGAAAACATTTTCCCAATGTCTCTTTACCACATTGGATTATAAATTTTCTACATTCTTCTTCTTCTTTTACTGGGCATTTATACAACTTGAATACAAAATATGGGAAAATAATTTTAAAATTTAATTTTCACCATCCTTGTCAGACAAATAACATTCATTATGAATCCTCTGAAAATTCCACTGTTGGTACCTCTATTTTTCCAGGCTTTTTCCCTCACCCCTTTTGTCTCCATTTTTATTCCTCACTTATTACTATCTCAATAACATCATTTCTACATTTTAG
Seq C2 exon
TTATTATATCAAAAAGAAGCAAAAATATTAAGAAGAAACTGAAGGAAGAGCAAAACTCAGTAACAGAAAACAAAACAAAGAATGCGTCACATAATGGAAAAATGGAAGACTTGTGAACGCAGACGACAGAGGTGCCGGCTGAGGCAGAGGAGAAACTATGGGGGTGCTGGGAGACTGAGCCTGTGGGCGTGGCTTGCTCCCAGAGAACCTTATGGAAGAGGACATCAAAGAAAGAAATGCCAGACCTGTATCCCAGAAAATAAAGCCACATGATATAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177025-C19orf18:NM_152474:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.345 A=NA C2=0.684
Domain overlap (PFAM):
C1:
PF097165=ETRAMP=PD(4.7=10.9),PF111393=DUF2910=PD(17.9=36.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
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
- 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)