DreINT0165397 @ danRer10
Intron Retention
Gene
ENSDARG00000012860 | tmprss4b
Description
transmembrane protease, serine 4b [Source:ZFIN;Acc:ZDB-GENE-030131-5862]
Coordinates
chr5:37309694-37310892:+
Coord C1 exon
chr5:37309694-37309836
Coord A exon
chr5:37309837-37310742
Coord C2 exon
chr5:37310743-37310892
Length
906 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
AAGTCTTCTCTCTCTTTCAGGGG
3' ss Score
11.21
Exon sequences
Seq C1 exon
GTGCGCTGCCCACAGTGCTGCAGAAAGCCTCTGTGCCGCTGGTCAACAGGTCTGAGTGTTCCAAACCCACTATTTACAGTTCCAGCATTACTCCCAGAATGCTCTGTGCAGGATTCCTCCAAGGAAATGTAGATGCATGTCAG
Seq A exon
GTAACAATACAGGCTAATTGTATCTAAGAGTTATACATGCGCCAGCCACTTTATTAGGTACAACATGTTTTTACCAGGCTGAATCTTTTTAATTGTTTGTGACAGATTTAACAAGTCATGGAAACATTCATTTGTGATGTTAATCTATATTGTCATGGCATCATGAAGACATGACTCATGAGTGATGTGAATCTGCCATTCCACCACATCCCGAAGTTGACCTGTTGGATTTGATCGAGTAATTGTAGAGGCCATCTGATTATACAAACTCAATGTAAACAAGTTTGAGATTTGTTTTGTGCATTATCCTGCTCAAAGTGACTTTACAAAATTGGTGCACTGAAGTCCTGGGTTGCCAGGTTTTTCCAGCAAAATTGGGTTAAAGCAATTACTGTGGGTTGTCTTTTAAATTGTGGTTTAAAGTTTTTACATAATTATATTTATATAGTTGCGTTGTAATATTTGAAAAGTGTATTTTCTACCAATGATTAACTAATGACATGCTGAGTTTTTATATAATTGGGCTAGATTTAATAAGCCATTGGTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTGCAAATGATGGATGGATATGGTCCGAAACAAAATTGTGTATACTGGGCCTGGTAGTACCAGTCAAGCATTTAAGCACATTAAAGTGTGCCAAAAATCGACCACCCACACAATTACTCCACCTACAGCCTGAATTGTTGATACAGGCAGAATGGACTGGACCCATGCTTACATGCTGTTTACAGCAAACTCTTAACCCTACAATTTAAATGCCACTGCAGAAATCAAGACTCTTTACACCATGGAGCCTTTTTCCCAATCTTCTCTTGCCTAATTTTGATGAACCTGTGTGAGTTCTAGCATTTTGAAGTCTTCTCTCTCTTTCAG
Seq C2 exon
GGGGACAGTGGGGGTCCGCTCGTGTACCTCTCATCTCGTTGGCAGTTAATCGGCATAGTGAGTTGGGGAGTGGGCTGTGCACGCGAGGGAAAACCTGGAGTTTACGCTGATGTTACTCAACTTCTAGACTGGATCTACACTGTAATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012860:ENSDART00000162470:9
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(21.4=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.0=88.0)
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:
GCCCACAGTGCTGCAGAAAG
R:
CTCCATTACAGTGTAGATCCAGTCT
Band lengths:
286-1192
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]