DreINT0165374 @ danRer10
Intron Retention
Gene
ENSDARG00000053315 | tmprss3a
Description
transmembrane protease, serine 3a [Source:ZFIN;Acc:ZDB-GENE-070912-70]
Coordinates
chr9:19749471-19749920:-
Coord C1 exon
chr9:19749751-19749920
Coord A exon
chr9:19749567-19749750
Coord C2 exon
chr9:19749471-19749566
Length
184 bp
Sequences
Splice sites
5' ss Seq
ATGGTACCT
5' ss Score
4.67
3' ss Seq
GATATCAGCATGTTTCTCAGGTA
3' ss Score
2.72
Exon sequences
Seq C1 exon
GATTGCTTATCCTATGTATTGGATGGTCTATGCGGGATTGACCGAGCTGCCACTGAATGCAGTAAAGGCTTTCGCCGTGGAGAAGATCATTTATCACAGCCGCTACAGACCCAAAGGCCTGGACCATGATATTGCTCTGATGAAACTGGCGCAGCCCCTCACCTTCAATG
Seq A exon
GTACCTTGTTTTTTAAAGTGCAAATGACTCTATTGAAGCACCACATGGGGTAACGTTTCTTTTAATCCAGCAAGTGTGAGGAACTGATAGCTGTGATGCAAATGGCCGGTCAATCTTATCTCGTGTTTTGCATTCACTTTGACAAATGACTTGTTTGATGGACTGATATCAGCATGTTTCTCAG
Seq C2 exon
GTATGGTGGAGCCTATCTGTCTGCCTAACTTTGGAGAGCAGTTTGAGGACGGTAAAATGTGCTGGATCTCAGGATGGGGTGCCACTGAGGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000053315:ENSDART00000157653:8
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:
PF0008921=Trypsin=FE(25.1=100)
A:
NA
C2:
PF0008921=Trypsin=FE(14.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGATGGTCTATGCGGGATTG
R:
ATCCTCAGTGGCACCCCATC
Band lengths:
243-427
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]