HsaINT1028179 @ hg38
Intron Retention
Gene
ENSG00000204314 | PRRT1
Description
proline rich transmembrane protein 1 [Source:HGNC Symbol;Acc:HGNC:13943]
Coordinates
chr6:32151809-32152175:-
Coord C1 exon
chr6:32152095-32152175
Coord A exon
chr6:32151900-32152094
Coord C2 exon
chr6:32151809-32151899
Length
195 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGA
5' ss Score
7.83
3' ss Seq
CTGCCGGCTGCGCCATCCAGCAC
3' ss Score
2.62
Exon sequences
Seq C1 exon
TCCCACCCGCCTCGCCTGGTCTAGCCTCCGTGTTTCCATGACAACTCCAAAGGAACCCAAACTGGGGGCTTGAATGCCGGG
Seq A exon
GTAAGAGGAGGAGAGAGGTGGTCCGAGAGCAGAGAGAGACCGAGTGGGAAACATCTGAAGCGCTCCCCCTCCCTCGCCTCGGTCCCTTTAAGCTCCCCCCCTCCCCGCTCTCCCTCCGCCCGCCCCCCCCGCCCCCCCCCCCCGCCGCTGCCTTCATCTCTCCATCTCTGCGCTGCTGCCGGCTGCGCCATCCAG
Seq C2 exon
CACCCAGACTCCAGCACCGGCCGAGGACCCCCACTCCGGCTGCAGGGACCCTGTCCCAGCGAGACCGCAGGCATGTCATCCGAAAAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204314:ENST00000375150:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
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:
CCTCGCCTGGTCTAGCCTC
R:
TGACTTTTCGGATGACATGCCT
Band lengths:
162-357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains