HsaINT0169752 @ hg19
Intron Retention
Gene
ENSG00000187045 | TMPRSS6
Description
transmembrane protease, serine 6 [Source:HGNC Symbol;Acc:16517]
Coordinates
chr22:37465113-37466692:-
Coord C1 exon
chr22:37466524-37466692
Coord A exon
chr22:37465385-37466523
Coord C2 exon
chr22:37465113-37465384
Length
1139 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCCACCCCACCCCACCCCAGCAT
3' ss Score
3.8
Exon sequences
Seq C1 exon
ACTGTGGCCTCCAGGGCCCCTCCAGCCGCATTGTTGGTGGAGCTGTGTCCTCCGAGGGTGAGTGGCCATGGCAGGCCAGCCTCCAGGTTCGGGGTCGACACATCTGTGGGGGGGCCCTCATCGCTGACCGCTGGGTGATAACAGCTGCCCACTGCTTCCAGGAGGACAG
Seq A exon
GTGAGCGGGAGGGTGTGGGGGCCTAGGCAGTAAGAGACAAGGGCAGGGAAGGCCCGGTGGGAGGTGCACTGTGTCTGAGCTCTTTGCAGATAGAGGGAAGGGTGGTGGACCCCCCAGACAGGCTACTGTGATGTGAGTTCTAGTCCTGGCTCCACCAGGACCTTCTGGGTCCCCGGACACATTGTTCCACCTCTCTGCCATCTACTTTTGGTATCTTGCTTTAAGTTGGGCCAGTAATTCATTCATTCATCTCATTCACTCATTCAGCAACACTTGTGCTCCTACTATGTGCCAGGGCTGTGCTAGATGCTGGGGATTCAGTAAAGGACAGAACTGCCCAACCTGGTCATAAGCTATGACACTCCCCGAGGTGTGACACGAGGTAGCAGGTGGGGCTGGGGAGCCCCCAGGGGACATCTCATCAGGCCTCATGGCCATCTTTCCCATCTGCTTGGTGGGCTGAAACCTCCCCCAATCCACCCCCAGACAGATCTGGGCTCCAGATCCCGCCCCCAGGCCCTGCACAGGGATCCCCTTTTGTATCCTCTCTGGGACGCAGGGCGCTCTGACCACCTAGCTCTCTTTAACCCCATCTCAGGCTCCCCACTGCCCTCAGGTAGAGGGTAGAGACCCGAAGGCTGCCCATCTGCCACCCAGGCAGCTGACTGCCGCAGTCCAATTCCTCCACGCTCAACTCCCACCCGCTCCCCACTAGGACCCACCAGCCTCAGGGAATTCAGAGCAGCCTGGGTCTGTAAAGCACACAGGAAAAAAGAAATCTGTGTCGGGGGCCTGGCACTGTGCTACATTTTTTAGATACACGGTCTTATTGGATTCTCTCAAGAACATTCGAGTAGAAAATGCCATTCCCATTTGCAGATGAGGTGGCAGAGGCTTAGAGAGGCACACCCATGTCTAGGGAGGGATGAAGCTGGGGCGTGGAACCCAGGCAGGCCGAGTGGGTGAAGGCTGAACGCTGTACCACCAGCTAGGCGACCTTCAGGGAGGGAAGGGAGGGCTGGGTGTGGAGGGCACTGTCCCGGGCGGGGATCTGGCTATCTTGAGGGTCCCTGGATGGGGAGAGGCAGCTTCCTCCCACCTCACCTCACCCCACCCCACCCCACCCCACCCCACCCCAG
Seq C2 exon
CATGGCCTCCACGGTGCTGTGGACCGTGTTCCTGGGCAAGGTGTGGCAGAACTCGCGCTGGCCTGGAGAGGTGTCCTTCAAGGTGAGCCGCCTGCTCCTGCACCCGTACCACGAAGAGGACAGCCATGACTACGACGTGGCGCTGCTGCAGCTCGACCACCCGGTGGTGCGCTCGGCCGCCGTGCGCCCCGTCTGCCTGCCCGCGCGCTCCCACTTCTTCGAGCCCGGCCTGCACTGCTGGATTACGGGCTGGGGCGCCTTGCGCGAGGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187045-TMPRSS6:NM_153609:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.001
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(20.0=80.7)
A:
NA
C2:
PF0008921=Trypsin=FE(39.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGTCCTCCGAGGGTGAG
R:
CTCGAAGAAGTGGGAGCGC
Band lengths:
350-1489
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)