DreINT0165394 @ danRer10
Intron Retention
Gene
ENSDARG00000012860 | tmprss4b
Description
transmembrane protease, serine 4b [Source:ZFIN;Acc:ZDB-GENE-030131-5862]
Coordinates
chr5:37307149-37307681:+
Coord C1 exon
chr5:37307149-37307311
Coord A exon
chr5:37307312-37307514
Coord C2 exon
chr5:37307515-37307681
Length
203 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
GATTTGTCTTTCTGTGTCAGCCG
3' ss Score
5.61
Exon sequences
Seq C1 exon
ACTGTGGTGAGGTGGTGGGAGAAGACCGTATTGTTGGTGGAGTGGAGACATCCATCGAGCACTGGCCGTGGCAGGTCAGTCTTCAGTTCAATCACCGGCACATGTGTGGAGGATCTTTATTGTCCACGAGCTGGATCATCTCAGCAGCTCATTGCTTTACAGG
Seq A exon
GTGAGCCACGTGTGAGCCAGAACAAAAGCACTTTAAATTGGTTAAATACATTTTTTTTTAGTTAAATGACGAGTAAAAATGTAAACTTAAAGCAGCTTTCCAATGTTTTTCTTTCTCTTTACAATAATGAAATGGATTTATACCTGTATGTAATTGACTGTGCGTCAGTTGGTTCATGTGGATGATTTGTCTTTCTGTGTCAG
Seq C2 exon
CCGGACACAAGAGCTGAGTCGCTGGACTGTGGTGTTGGGTCAGACCAAAGTGATGGACGTCGTCGGTGTCAGTGTGGATATGATTGTCATCCACAAAGACTACAACCGCTTGACTAATGACTTCGACATTGCCATGCTGAAACTCACCTGGCCTGTCAAAACTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012860:ENSDART00000162470:6
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:
PF154941=SRCR_2=PD(5.1=9.1),PF082717=TF_Zn_Ribbon=PD(73.9=30.9),PF0008921=Trypsin=PU(20.0=80.0)
A:
NA
C2:
PF0008921=Trypsin=FE(23.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGGTGGGAGAAGACCGTAT
R:
TCAGCATGGCAATGTCGAAGT
Band lengths:
293-496
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]