HsaINT1044714 @ hg38
Intron Retention
Gene
ENSG00000176040 | TMPRSS7
Description
transmembrane protease, serine 7 [Source:HGNC Symbol;Acc:HGNC:30846]
Coordinates
chr3:112074296-112075492:+
Coord C1 exon
chr3:112074296-112074412
Coord A exon
chr3:112074413-112075320
Coord C2 exon
chr3:112075321-112075492
Length
908 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
ATGCCCTTTCTCCACCAAAGCCT
3' ss Score
4.4
Exon sequences
Seq C1 exon
GTATTCCATGCAACAACAGAACTTTTAAGTGTGGCAATGATATTTGCTTTAGGAAACAAAATGCAAAATGTGATGGGACAGTGGATTGTCCAGATGGAAGTGATGAAGAAGGCTGCA
Seq A exon
GTAAGTAGAAATTCATTCCTTTGGGTTCCTGTATTCCCTCTTCAGTTTACCTGTTTGTTATATTTTCATTCCCTTCTTGGTGTATTTCCCTTGATCGAGGTTGCCATAGCCAAAACAAGAATAGTAACTATTGACAAACTGAGTCTGAAATTGTTTCTCAGAAATAAAAACTCTGGAATGGATTCTGTCTTCTTGATAACAGCATTAATGAATTAAATTTTTAAAATGAGAACTTTCACTTTTTAATAATTTTAATCAAGGGAGAAGATCTTAAATAAAAACCTTGTGAGAAAATAAATAGAAACTGGAACGCAGTGGATGACCTGTTAATGCCTTATGTTACTAACAATATCAAGTGCTGTTTCTTTAGGCCTGACTCAATAACTAATCTCCCACATGCTCCTATTAGTCATGTGGCTACTACTTGGCCATGTGGCAACATGTAAATTATACATCTTTACCAATACTATTTACACTAGCAAACAATTGCTCTGATAACTAGTTTTCCCTGTAGGTTTTCATTTGTCCAGGTCTTATAAATCTTTTCCCCAATCCTTTCTGTCACATCAGCACAACTTCAAAGAAATTCTCAATTCATTTACATTCCTCTTTACCTGACAATCTAAATCCATAGGCAGCTGTTTGTGTCAGTTCAGCTGTTACAGCAGGTCCCCCTCCTCCTCTCATCTGCGTTGTGGTATAGAGACTGTGTCAGGGCATGCTTCAGGAAGGAGGGAGTGGTTTGTTTGTATTGGTTTCAGACAGACTCACATGTTCTCTGTCCTCTAGATAAGGAGATTTCAAATTGCTACCTAGTGAGTCAGTTCCCAGCCAGCACTAAAACTGGCTTAACTTCTAGTTTTTCTTCCAAGTCTACCTTTAAATCACATGCCCTTTCTCCACCAAAG
Seq C2 exon
CCTGCAGCAGGAGTTCCTCCGCCCTTCACCGCATCATCGGAGGCACAGACACCCTGGAGGGGGGTTGGCCGTGGCAGGTCAGCCTCCACTTTGTTGGATCTGCCTACTGTGGTGCCTCAGTCATCTCCAGGGAGTGGCTTCTTTCTGCAGCCCACTGTTTTCATGGAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176040:ENST00000419127:12
Average complexity
IR
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:
PF0005713=Ldl_recept_a=WD(100=92.5)
A:
NA
C2:
PF0008921=Trypsin=PU(20.0=79.3)
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:
TTCCATGCAACAACAGAACTTT
R:
CTGTTTCCATGAAAACAGTGGGC
Band lengths:
286-1194
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains