HsaINT0169664 @ hg19
Intron Retention
Gene
ENSG00000137747 | TMPRSS13
Description
transmembrane protease, serine 13 [Source:HGNC Symbol;Acc:29808]
Coordinates
chr11:117774674-117776451:-
Coord C1 exon
chr11:117776353-117776451
Coord A exon
chr11:117774817-117776352
Coord C2 exon
chr11:117774674-117774816
Length
1536 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
TCCACCCCACTTCACTGAAGACA
3' ss Score
1.57
Exon sequences
Seq C1 exon
CTCACATCCACCCTGCTTGCCTCCCCATGCATGGACAGACCTTTAGCCTCAATGAGACCTGCTGGATCACAGGCTTTGGCAAGACCAGGGAGACAGATG
Seq A exon
GTAAGAGGCAAAGATGCTTGGTTGTGTGTATGTATTCATGTGCATGTGTGTGTATACATGTGCGTGTGTAAGCAATGTGTCTGGGTATACAGATGAAGGCCTATGTCGATGAGCGTTTGGGTATACGGATTCATGGGCCTGGGTGTGATTATGTGTGTATAGACACCTGAGTATATGCCGGTGCAGTCACTGTGACAATGCCCTCCAATCAAGACCACCTGGAAAACTGCTGTGGTTGAACTAGTTGAGTTCATTGCTCATTGCAATGAGAGAGAGAACACACCATGAAGAACCATGGAGCATCTCAGCAAGAGGGTGTCAGAGAGGGAATGCTCGTAGGATTTAGGTGGCTTGGGGAGGGTTCAAAGACGCAGGACTTTTCTCTAAATTGTGGTGTCAGGAAGCAGGGGTTATGATTGGGAACCTTAATAATCTTATCTAGAGGCCGGGCACCGTAGCTTACACCTGTAGTCCCAGCACTTTGGGAGGCCAAGGTGGGAGAATCTCTTGAGCCCAGGAGTTCAAGACCAGCCTGGGCATCATGGCAAAACCCCATCTCTACAAAAAATAGAAAAATTAGCTGGGCATGGTGATGTGTGCCTGTAGTCCCAGCTATGAGAGGGGCTGAGGCAGGAGGATCACTTGATCCCAGGGAGGTTGAGGCTACAGTGAGCCATGATCATGCCACTGCACTCTAGCCTGGGTGACAGAGTGAAACCCGTCTCAATTAAGAATATATATATATATATATATATATATATATATATATATATATAATCTTATCTAGGAGCTCTAAGTGGTAAGGAAGCAGCAGTCACTCATATTGGCCAGGAGAGGGGGATGTCTGGTACTGTTGTGGTTTGCACAGTGACCTTGTTTTTGTCTGGCCTTAAACAAGATGATGAAGTGGTCTTGTTTTCATGTCATCCCAATCACAGAGTGCCTTGTCCTGTGAGATTGCTTACTTTGAGCAGGATGACCCCATGGTTAGACTCAGGCCACTTCCATGCATCAGGACCGCTTTTCCCTCCCTCCGTGAGGCAGAGCAATGACTGATGTGGGTGCAGCCTACTTCTCCTCTTGTCTCCATACCTGACTAGCTGTGTGACTGTGGGCAGGTCACTTCTCCAGCACCAGGCCTCCCCACCGGTAAATGGATTAATGCCACCTGCTCTCTTTAGGGCACATAGCTTCCAAAAACAAACAAAGCCATGTATCTGAGGGTGCTTTGAACGTAGGCAAGTGCTGTGCAACATGTCGGGTAGCCTGATAGGCTTGTGAGTGTGTCTGTGTGCATGGATGTCTCTGTCTCACGTGCAGTGAGCTGTGTCTTGTGTGAGGGCGTGTGTGCCCATATGTCCTGGGTGTCCAACCACAGAGGGCCTCCCTTGGGTGGGAGCCAGGCACGGGCATGGCACCCTCCATTCCCAGGAGGCTGTGATTCTGGGTCTTGGGGTGGCAGCTGGACGGCCAGGAAGCTATCTAGAATCTCACTGGCTTCCCATCCTCTGTCTCCTCCACCCCACTTCACTGAAG
Seq C2 exon
ACAAGACATCCCCCTTCCTCCGGGAGGTGCAGGTCAATCTCATCGACTTCAAGAAATGCAATGACTACTTGGTCTATGACAGTTACCTTACCCCAAGGATGATGTGTGCTGGGGACCTTCGTGGGGGCAGAGACTCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137747-TMPRSS13:NM_001077263:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(14.4=100)
A:
NA
C2:
PF0008921=Trypsin=FE(20.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCACATCCACCCTGCTTGC
R:
CAGGAGTCTCTGCCCCCAC
Band lengths:
238-1774
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)