HsaINT0169646 @ hg19
Intron Retention
Gene
ENSG00000153802 | TMPRSS11D
Description
transmembrane protease, serine 11D [Source:HGNC Symbol;Acc:24059]
Coordinates
chr4:68698922-68700839:-
Coord C1 exon
chr4:68700801-68700839
Coord A exon
chr4:68699100-68700800
Coord C2 exon
chr4:68698922-68699099
Length
1701 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
TTAATGCCCTTTCTCATTAGAAT
3' ss Score
7.81
Exon sequences
Seq C1 exon
CACTTACTGACCAGGCTGCAGCAAATTGGCTTATTAATG
Seq A exon
GTAAGTTTTAATATTATTTTGTAACTGTAATTTGCCAAATCATAAAGAGTAAAAGTGCAAGTCTTTTGTGTACTTTTGGCCAAGGCAGTATCTATCAAGTTGATGTCTTTGTTCTTAGTTCGCTCAGGTGGTGTTGAAACAAGACAGTGCTGATCCCAAGTGTCCCATGGAGTGGACTTTAGGTTTCCCCTTTCCTTTTAGAAAAAGGAAGAAGTTGTAGTGGAGGACTACCCACTCTGCACTCAAAATTGCCCTCATGAAAATTTCTTTGGCAGCTTTGAGAACCTTTTACTGCCCTGGTTCTAAGGTGGCATTTCTGTAGACTTACAAATTATGTTTGATGACACCGTTTATGTAGCTTCTCCTAACCACCAGAGTAGCTTGCTTTGTTGTGAATTCAGGTTAATCACAAAGTATAATAAAAAAGAATTGTCAGAAGTCTTCCCAGCTTTGGGTCTATAACCTGAAGGAAAAGTCACTACTCTTCAACATCATCCTATGTACTCTCAGGCTAGGATAGCAGAAATGCAATCCCTAGAAAACAGCAACTTACTTCTCTGACCAAAAAAATGCAGTTAAAAATTAGTTCAATGTACCTGGTAGCTGGCCTATCTTAGGTACTTCAGTGATTTTACAAAGTGATGGTAGTCCTATGGGTGTTTTTCAGCTTCACTACGTATTTAATTCATGCTTATTGTTAATGAAACTGTGATAAGCAATTTACTAGGGTATTTGTTTGGGAGATGCCACAAAGGAACACATGTATCTCTTAATGGAAGCCTGGTCCTCCTTTATCCAGGAAATTTGCTAGGAAAAAAAAGCCTTTAGGTGGTTGTGCTATTAAACCAGGGCACTACTTAAAAGCCAGCCCAGCAATAGTTGTGTGATTTACCATTAATTTCTTAGTAATAGACCACACAAAAGAAGAAAATTATGGGAATGCGAGTTGAGAGGAATTGGGTGATCAGCCTACCCCAGCCCGTTTCAGCTCTGGCCAGTAGACTATTCACGAGCTCTTTGAAAACATTTAAATAAACCTTATTTAGATACTAGAAACCCTCTGTCACCCTCAAGAATATTCTGTGGTATAGCGACTCCTTTATGAGGGCATGTTTGGTAATACAGCATCAGTCTTGGAGGTGGACTGGATTCTACAAGGTGAACTGCAGTCACTAAGGAGTCTTTTGGATGAGACCAGTTTTCCTCCAACTTCAATGTGTGCATGAACCTCACATCAAAATGTAGCTTTAGATTTGTCCCATGATGTGGTTCCAAGAATCAGCACTTCTAATAAGTTTCCAGGGGATGCCCATGCTGCAGGCCCACAAACCACACTGAGCATAGCAAGACTATTGAGAAAAAGGAAATTTCCCAGGAGTCTGTGGCCTGAGCTGGCACATCCAATAATGACCTATCTTAACCTCAACTCATGAGGAATTCCAGGGAACTCTGAAGCTGCTCAAAATTTGAAGCCTATATGCCAACTAAATTCAGAAATGTTCTCCAAAATGCTATCTATAAGCAACAGTAGTCACAAATGCATTGTAGAAATATATCGATCATGCTTTTTGGAAAATCCAGCATGTCCTGAGGAAGAATGTATAAGACATAAAAGTCATAAATTATGGAAAGACTCTTCAGCTTCTTCCAAATGTAAAGGAATCATGATCTTCCCAGCACATTAATGCCCTTTCTCATTAG
Seq C2 exon
AATGTGGGGCCGGTCCAGACCTAATAACATTGTCTGAGCAGAGAATCCTTGGAGGCACTGAGGCTGAGGAGGGAAGCTGGCCGTGGCAAGTCAGTCTGCGGCTCAATAATGCCCACCACTGTGGAGGCAGCCTGATCAATAACATGTGGATCCTGACAGCAGCTCACTGCTTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000153802-TMPRSS11D:NM_004262:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(19.5=73.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTTACTGACCAGGCTGCAG
R:
CAGTGAGCTGCTGTCAGGATC
Band lengths:
208-1909
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)