DreINT0132760 @ danRer10
Intron Retention
Gene
ENSDARG00000088143 | sema4gb
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4Gb [Source:ZFIN;Acc:ZDB-GENE-111117-1]
Coordinates
chr12:33754989-33755296:-
Coord C1 exon
chr12:33755198-33755296
Coord A exon
chr12:33755080-33755197
Coord C2 exon
chr12:33754989-33755079
Length
118 bp
Sequences
Splice sites
5' ss Seq
ATAGTGAGA
5' ss Score
1.69
3' ss Seq
ACATCTGCCTGTTTCATCAGGAT
3' ss Score
9.12
Exon sequences
Seq C1 exon
ACTGAATGCTACAATCACGTGCGGTTTCTGGACAGATACAATGACACTCATTTGTACACCTGCGGGACTCACGCCTTCAGACCCCGCTGTGCTTACATA
Seq A exon
GTGAGAAGTTTCCTGCTCTCATTCTGTCATTCATATTGCAAAGGAGACATCAGTGTATGTACTGTATAGTCTCGTATAAGATAGAGCACGTTGTTTAAACATCTGCCTGTTTCATCAG
Seq C2 exon
GATGTGGCACGTTTTACCTTTGTGCGTTTTGAGGAGGGAAAAGAGAAATGCCCTTATGATCCCACTAAGGGGTACACTGGATTTATTATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000088143:ENSDART00000131181:2
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=FE(8.2=100)
A:
NA
C2:
PF0140314=Sema=FE(7.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGCTACAATCACGTGCGGT
R:
CGATAATAAATCCAGTGTACCCCT
Band lengths:
186-304
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]