DreINT0132692 @ danRer10
Intron Retention
Gene
ENSDARG00000062352 | sema4ab
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4Ab [Source:ZFIN;Acc:ZDB-GENE-060503-363]
Coordinates
chr19:24800441-24800848:+
Coord C1 exon
chr19:24800441-24800604
Coord A exon
chr19:24800605-24800759
Coord C2 exon
chr19:24800760-24800848
Length
155 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
TCCTTCTGCTGCTCTTGCAGGGC
3' ss Score
10.28
Exon sequences
Seq C1 exon
GGGGCAGTGCTGATCGGCTCTTCAGAAGGGCTGCTGTCAGTGCCAGTGTCCAACTGCTCTCACTACAGGAGCTGTGCTGAATGTGTTCTGGCCAGAGACCCTTTCTGTGGCTGGGACCTTTCCCAGAGGGTCTGCAAACTGATAACCACATCACAGAATCAGCT
Seq A exon
GTGAGTATCAGCACAGAAAAATGTGCTCAAACATAAAAAAATACTAACTGGTTTAAAATGCTTAAGGTTACATAAGAAATCTATGCCACCAAAAGTGTGTAATTGAGCACAAGCATCTTTGTTGAAATGAATGTCTCCTTCTGCTGCTCTTGCAG
Seq C2 exon
GGCTCAGGATGTAGATGAGGGTAAAGTATCAGAGCAGTGCTCCAGTGTGAACCTCAGATCCCGCTCTGGCCAGCCCCAAAACACCCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062352:ENSDART00000140732:11
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=0.131
Domain overlap (PFAM):
C1:
PF0140314=Sema=PD(0.1=0.0),PF0143720=PSI=PU(54.4=66.1)
A:
NA
C2:
PF0143720=PSI=FE(44.1=100),PF138951=Ig_2=PU(6.5=19.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTGCTGATCGGCTCTTCAG
R:
CTGGGTGTTTTGGGGCTGG
Band lengths:
248-403
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]