DreINT0132749 @ danRer10
Intron Retention
Gene
ENSDARG00000076595 | sema4ga
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4Ga [Source:ZFIN;Acc:ZDB-GENE-060503-381]
Coordinates
chr13:9394034-9394268:+
Coord C1 exon
chr13:9394034-9394096
Coord A exon
chr13:9394097-9394169
Coord C2 exon
chr13:9394170-9394268
Length
73 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
AGATTTCCTCACTCTTACAGACG
3' ss Score
7.39
Exon sequences
Seq C1 exon
ATTGACTGGGAGGCATCAGACGATCAGATGCAACAATGCTGGAACAAAGGGAAAGATAACCAG
Seq A exon
GTTGGTCAAATCTCCATCTATTGTGTTATCACCTCTGGATCGTGTACTGATGTAGATTTCCTCACTCTTACAG
Seq C2 exon
ACGGAGTGTTTCAACCACATTCGCTTCCTGCAGAGGTTCAACAGCACACACTTGTACACGTGCGGCACACATGCTTTCAGCCCTCTGTGTGCATACATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076595:ENSDART00000111365:3
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=FE(4.4=100)
A:
NA
C2:
PF0140314=Sema=FE(7.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTGGGAGGCATCAGACGAT
R:
CACACAGAGGGCTGAAAGCAT
Band lengths:
151-224
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]