DreINT0021351 @ danRer10
Intron Retention
Gene
ENSDARG00000086161 | TMPRSS7
Description
transmembrane protease, serine 7 [Source:HGNC Symbol;Acc:HGNC:30846]
Coordinates
chr24:21702603-21703519:-
Coord C1 exon
chr24:21703412-21703519
Coord A exon
chr24:21702711-21703411
Coord C2 exon
chr24:21702603-21702710
Length
701 bp
Sequences
Splice sites
5' ss Seq
GTTGTATGT
5' ss Score
4.04
3' ss Seq
ACGTTATCTCTGTTCCACAGCTA
3' ss Score
8.88
Exon sequences
Seq C1 exon
CATGTCCAGACACCCACTTCCTGTGCTCCACGGGTCTGTGTGTGGAGAAATCCAAGCGCTGTGATGGACTGGATGACTGTCAGGATGAAAGCGATGAGATTTTCTGTT
Seq A exon
GTATGTTGACCACGAAATCGTGTAGTTCTAATATAGTAAAACAAGTCAACTTAGTAGGCCACTAGGGGGCCTCGACTAACTTCTAGGGTTGCCCCCATAAAAATCAGTTAGTTATAGTAACACAACCTCAAAATATACATTTTATGCTGTTTAAGATAGTTCCTAATCTTGTTTTAGAGGTTATCCTATAGGCTCATATCCATCCATACAAGGTCAAAAAAACATGTAGCATAATCTCTTCTCTCTGTGTCTGAAATGGTTTGTTAAATGAATTATTCTCTCTATTTCTTGTCTCTATAAATCTGCTCTGCTCTGATTGGTCATACAGTATGTCAGACATAGTTTGTTGTGATTTGTCTGCCATTTGCAGCTAGAAATAAAACAAACATTACACATTTAAATTTTAGCACTTCCTTAATACTTAGACAAAATATGAACAGTAAAAATGGTGTCACTTTTACCATTTTAATTTAAATGTGAATTCATCATTAGGAAGTGCGTTCAAAGAGATTTGTTTTTGCAAATTTGGCAATAAATATCTGTTAGAAAAACTATGTAGGCTTGTACACCAAGTAAAGCAGGAAGAAATAAAGAAAAAGAAGTCTTCAATGATTGAGAACAATGCATTTTTATAATATCAAATGAGTATTTCTATGAATATTCAGCGTTTTATCATACGTTACGTTATCTCTGTTCCACAG
Seq C2 exon
CTAAACCTCCTAAATTCTGTGGTGGTACATCCCCTTTGCACCCATTATACATTTGTAATGGAGAGATGGACTGTTCCAGTGGTAAAGATGAGACAAACTGTACTCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086161:ENSDART00000129558:12
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=PD(94.6=94.6),PF0005713=Ldl_recept_a=PU(2.9=2.7)
A:
NA
C2:
PF0005713=Ldl_recept_a=PD(94.3=89.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTCCAGACACCCACTTCCT
R:
CCTGAGTACAGTTTGTCTCATCT
Band lengths:
215-916
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]