DreINT0165393 @ danRer10
Intron Retention
Gene
ENSDARG00000012860 | tmprss4b
Description
transmembrane protease, serine 4b [Source:ZFIN;Acc:ZDB-GENE-030131-5862]
Coordinates
chr5:37306290-37307311:+
Coord C1 exon
chr5:37306290-37306333
Coord A exon
chr5:37306334-37307148
Coord C2 exon
chr5:37307149-37307311
Length
815 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
ATTCAAATGAACATCTGCAGACT
3' ss Score
2.42
Exon sequences
Seq C1 exon
TAATAAATGTTCCTCTGGCTCAGTGGTGTCTGTGTCCTGCTCTG
Seq A exon
GTAAGATGTGTGTTTTCATAAATTATGAGGATGCTCTGATAAATGACGGCATGGATTGCACTGTACTATTGAATGTTGTTTTTTGTTTATTAATGCTGTCTTAATCATAGAAAAGCAACACAAACTGACAGCAATTTGTAACTTTTTATTAGTCGCTAATTTGTATGAATTCTTAAGATCTCATTGGTACAATTTAGTACGATTTGCTTACCCAGTGACAGGTTTAGGGGCGGGGTTGGGTGCTACGCCTCCTTTTTAAAATTGTACATTGAACTCGTACATTGACTGAACTTATTCAAATAAGCCACTAAACTGATAAACGTAAAACTGATAGGTTTCCTTGTGAGATCAAGCTAAGTCTTTTGATTTGGTAAGCAGGAAATATGGTGTGTTTTGGCAAACTGAATTTAAGAAGCTATCTCCTAATTTTTTTTCTTTTACAACATTTGGCATAACAATTAATGTTTCAGTTCAGTGTCATTGCTTATGTTTTGCTCTACAACATGGCGGACTGATCAGGCTTGTTAAAGCTTTATAATGTAAAAAAGTAAAGCAACAAGAAAATATTTTCTAAAATATAAAGCTAAAATGTTTGTGTAAGGGCTTTGTGTATCGAGAATAATTTAGAACAAAAGAAACAAATAGATTCTTTTAAACTCCTGAGCTGAATTTGGTCGCAACTCATAGGAAGTTGAATAAGAATAAAAAAGTGGATTGTATAAAACTGCAATTCAAAGACACTAAACAATCTGTAAATTTAATAAAGTTAGGAAGCATATGAATCTCTTGTTTCTGATTCAAATGAACATCTGCAG
Seq C2 exon
ACTGTGGTGAGGTGGTGGGAGAAGACCGTATTGTTGGTGGAGTGGAGACATCCATCGAGCACTGGCCGTGGCAGGTCAGTCTTCAGTTCAATCACCGGCACATGTGTGGAGGATCTTTATTGTCCACGAGCTGGATCATCTCAGCAGCTCATTGCTTTACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012860:ENSDART00000162470:5
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=FE(15.3=100),PF082717=TF_Zn_Ribbon=PU(21.7=31.2)
A:
NA
C2:
PF154941=SRCR_2=PD(5.1=9.1),PF082717=TF_Zn_Ribbon=PD(73.9=30.9),PF0008921=Trypsin=PU(20.0=80.0)
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:
AATAAATGTTCCTCTGGCTCAGTGG
R:
GCAATGAGCTGCTGAGATGAT
Band lengths:
198-1013
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]