DreINT0018768 @ danRer10
Intron Retention
Gene
ENSDARG00000076104 | SEMA4B (2 of 2)
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B [Source:HGNC Symbol;Acc:HGNC:10730]
Coordinates
chr7:29980971-29981272:+
Coord C1 exon
chr7:29980971-29981131
Coord A exon
chr7:29981132-29981209
Coord C2 exon
chr7:29981210-29981272
Length
78 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
GACGTTTTCATCTTTTGCAGCTC
3' ss Score
10.43
Exon sequences
Seq C1 exon
ATGCAGAAGGGCGATCAGTGAGCGGGTTCTCTGTGAATGGTGTGTACAACTATTCAGCTCTTCTGCTGAGCCCAGATGAAAACAAGATCTATGTGGGAGCCAGAGAGAACATATTCTCCCTCAGCCTGGACAACATCAGCGTGACGCACCTACAGAAAACA
Seq A exon
GTAAGTTCATGGGAGAATGTTTGTAGTAGTGTGTAGGAGTACATTTTGACGTTACTTAGACGTTTTCATCTTTTGCAG
Seq C2 exon
CTCACGTGGAGCACTCCTGAAACAAAGAGGGGAGAGTGTATCTTTAAGGGAAAAGACCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076104:ENSDART00000109243:3
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:
PF0140314=Sema=PU(30.8=66.7)
A:
NA
C2:
PF0140314=Sema=FE(17.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCGGGTTCTCTGTGAATGG
R:
CCCCTCTTTGTTTCAGGAGTGC
Band lengths:
174-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]