HsaINT0133081 @ hg19
Intron Retention
Gene
ENSG00000196415 | PRTN3
Description
proteinase 3 [Source:HGNC Symbol;Acc:9495]
Coordinates
chr19:846147-848175:+
Coord C1 exon
chr19:846147-846377
Coord A exon
chr19:846378-847798
Coord C2 exon
chr19:847799-848175
Length
1421 bp
Sequences
Splice sites
5' ss Seq
TTCGTAAGT
5' ss Score
9.77
3' ss Seq
TGGCCGTCCCTGTCCTCCAGGGA
3' ss Score
10.12
Exon sequences
Seq C1 exon
CTGAGCAGCCCAGCCAACCTCAGTGCCTCCGTCGCCACAGTCCAGCTGCCACAGCAGGACCAGCCAGTGCCCCACGGCACCCAGTGCCTGGCCATGGGCTGGGGCCGCGTGGGTGCCCACGACCCCCCAGCCCAGGTCCTGCAGGAGCTCAATGTCACCGTGGTCACCTTCTTCTGCCGGCCACATAACATTTGCACTTTCGTCCCTCGCCGCAAGGCCGGCATCTGCTTC
Seq A exon
GTAAGTAACCGTGCCCCCACCCCGGGCACCGGGCTGCCATGAGGGGAGGAGGGCGGCGGCCAGGGTTCCACGCCACCTCTTAGCTGTGTGGCTTCATGCTGTGCCTCAGTCTCCCCACCTGGAAGGTGGGCACACCCAACACCCAACGGGCAGGCTCAGCGGGGTGGGGGCGCTCACATTGCACCTGGCTGCTTGGGTGGGTCTGGGGGTTCCCTGCCCCCCACTCCCCTCTAGGACCACAGGAAGGTGTGGGAGACCCATCCGCCCTCACCGGCGGCCCCTTCCAGAATCCAGGACTCCAGGTATCCAGCGGGAGGCCCATAAATGCCCAGTTCCTACGAAAGACCTCAGCCCCTCCCTGCTCACACTTTTTGTTTGTTTTTGAGACGGAGTGTCGCTCTGTTGTCCAGGCTGGAGTGCAGTGGTGAGATCTCAGCTCACTGCAACCTCCACCTCCCAGGTTCAAGGTATTCTCCTGCCTCAGCCTCCTGAGTAACTAGGTGCACAGGTACCTGCCACCGTGCCTGGCTAATTTTTTTGGTATTTTTAGTAGAGATGAGGTTTCTCCATGTTGACCAGGCTGGTCTTGAACTCCTGGCATCAAGTGATGCCTGGCTGGTGCTCACACATTTTAAAGAAAATTCCAGGCCAGCAGTGGTGGCTCACGCCTGTAATCTCAGCACTTTGGGAGGCCAAAGCGGAAGGATCTTTTGAGTCCAGGAGTTCAAGACCAGCCTGGGCAACATAGCAGGGTGGCATCTCTACAAATAATTTAAATATTAGCTGGGCATGGTGATGTGAGCCTGTAGGCCCAGCTACTCAGGAGGCTAAGGCAGGAGGATCACTTGAGCCTGGGGAGTTCGAGGTTGCAGTGAGCTATGATTGTGCCACTGCACTCCAGCCTGGAGAACAGAGCGAGACCCTGTCTCGAGAGAAAGACAGCCAGCTACTCGGGAGGCCGAGGCAGGAGAATCACTTGAACCCGGGAGGCAGAGGTTGCAGTGAGCCGAGATCACGGCACTGCACTCCAGCCTGGGTGACAGAGCGAGACTCTGTCGCAAACAAAACAAAAACAAAACAAAACAAAACAAAAGGAGAAAGAAAGAAAGAGATAGAGAGAGAAAGAAAGAAGAAAGAAAGAAAAAGAGAGAAAGAAAGAAAGAAAGAAAGAAAAAGAAAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAAAGAAAGAAAGTTCCATATTGGAAGCATTTTATTCTGAAACAGCTGTGGCTACCCCAGCCCCCTTCCTGGCTGCCTGGGGCCAGCCCGGGTGACTGGCTGTCCCCATCCTCCCGGGAGACTCAGGTGGCCCCTGATGGGTGACTGGCCGTCCCCATCCTCCAGGGAGACTCAGGTGGCCCCTGATGGGTGACTGGCCGTCCCTGTCCTCCAG
Seq C2 exon
GGAGACTCAGGTGGCCCCCTGATCTGTGATGGCATCATCCAAGGAATAGACTCCTTCGTGATCTGGGGATGTGCCACCCGCCTTTTCCCTGACTTCTTCACGCGGGTAGCCCTCTACGTGGACTGGATCCGTTCCACGCTGCGCCGTGTGGAGGCCAAGGGCCGCCCCTGAACCGCCCCTCCCACAGCGCTGGCCGGGACCCCGAGCCTGGCTCCAAACCCTCGAGGCGGATCTTTGGACAGAAGCAGCTCTTCCCCGAACACTGTGGCGTCCGGGACGGCCCCACCCGTCCCCCCACACTCCCTCCCACGGGGCTCCGGGAGACAGGCCGGCCCTGCACCTCACCCCACCGTGACCTCAATAAACGTTGAAACTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196415-PRTN3:NM_002777:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(35.2=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.4=73.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCTGCAGGAGCTCAATGTC
R:
TGCTTCTGTCCAAAGATCCGC
Band lengths:
343-1764
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)