HsaINT0169667 @ hg19
Intron Retention
Gene
ENSG00000137747 | TMPRSS13
Description
transmembrane protease, serine 13 [Source:HGNC Symbol;Acc:29808]
Coordinates
chr11:117787885-117789553:-
Coord C1 exon
chr11:117789124-117789553
Coord A exon
chr11:117787990-117789123
Coord C2 exon
chr11:117787885-117787989
Length
1134 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TGCTGCCGCCCTGCTCCTAGGTA
3' ss Score
8.78
Exon sequences
Seq C1 exon
AATGCATCTCCAGCAAGAACACCTTCAGCTGGAGCATCTCCAGCCCAGGCATCTCCAGCTGGGACACCTCCAGGCCGGGCATCTCCAGCCCAGGCATCTCCAGCCCAGGCATCTCCAGCTGGGACACCTCCGGGCCGGGCATCTCCAGCCCAGGCATCTCCAGCTGGTACACCTCCAGGCCGGGCATCTCCAGGCCGGGCATCTCCAGCCCAGGCATCTCCAGCCCAGGCATCTCCAGCCCGGGCATCTCCGGCTCTGGCATCACTTTCCAGGTCCTCATCCGGCAGGTCATCATCCGCCAGGTCAGCCTCGGTGACAACCTCCCCAACCAGAGTGTACCTTGTTAGAGCAACACCAGTGGGGGCTGTACCCATCCGATCATCTCCTGCCAGGTCAGCACCAGCAACCAGGGCCACCAGGGAGAGCCCAG
Seq A exon
GTAAGGGGGATGCTGTAGGGAAGCCACGAGAGATGGGAAGCAGCCCATGGGCAGGGAGGAAATCTCAGAGCCAGTGTGCTCTGCTCTCATAGCAGACAACGATGCGGGGAAGGGGAGGTAGGGGGGTGGGAAGTGAGGGACCTGAGGGTGGAGGCAAAAAGGAAACATTACATGAAAACCTGAGACAGTGGAAAATGAGGGGCAAAGGGGGTAGGTGATAAGAAGCCAGGACTAACAAAGCAGCTTGTCACCCTGGAGTCTGCACAACCCAGGTCAGAGCACCGGTTTCAATAGCAAGGTCTCCCAGTTAGTCACAGGGTTCTCTCCTTGTGCTGTCCTGTGGGTCTGCCTAAGAAGCTGGGGTCTGCAGTGGAGCAAGGTCATGATCAGTGGGCCCATCTGTGGGTGGGGGAGGAAAAGGAGAGATTCTGACCAGGTGTGCAAGTCCATCCCCAGCCTTCCAAATTGTGGGTTGTGTGGTTTAGCTACTAGGGAGTCAGAGAGGTTGAATAGGCCTTGGGGACTGGGTCTTCCCTTAAGGAATCAGTGTTCCTGCCCACTCCGATGCTGCCCTCCTCCCATCCCAGAATTCAGACTGTCCCCACCACCACAATACACACAGGCCTGGATGATACGTGGCTTTGGAGGATCACTCGAAGTTTGGGGCCCATCCCACAGCCTTGCCCTCTCCAGGGTGGGTGAAGTGCTTTGGTATCAGACCCACTGCACTGGAATCCCTACTCTGCCACTAACTCACCAAGTAACCCTGGGCAAGTGATTTCACTTCCACGAACCTCAGTTTCCCCATCTATAGAAAGGGGCCTAATAAGACTCTGCTCATGAGGTTGCTGTGAGAATTAACACAGGCAAAGTGCCTGGCTGGCCCAGAGGAGAGCACAGTAAAAGATCGCTGCTGGTGCCAGGCAGGGGGAGCTCAGTTTTTGCATTTTCAGATGGGACAAAATTCATTCATTCATTCAATTGACTTTGAGCCCCATAAAATCTCATTCCAACTTCTGGGGTGGAGTGGTCCTCACGGGGCCCTCCTGGGCCACAGTCTTGTTTCCCCCACCCTCTCCATCTCGTCGGACTCCTCTCCAGCCTCATATTCCCCTGCTGCCGCCCTGCTCCTAG
Seq C2 exon
GTACGAGCCTGCCCAAGTTCACCTGGCGGGAGGGCCAGAAGCAGCTACCGCTCATCGGGTGCGTGCTCCTCCTCATTGCCCTGGTGGTTTCGCTCATCATCCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137747-TMPRSS13:NM_001077263:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.921 A=NA C2=0.200
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
ATCTCCAGCTGGTACACCTCC
R:
CAATGAGGAGGAGCACGCAC
Band lengths:
353-1487
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
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)