DreINT0132751 @ 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
chr13:9395802-9396165:+
Coord C1 exon
chr13:9395802-9395895
Coord A exon
chr13:9395896-9396051
Coord C2 exon
chr13:9396052-9396165
Length
156 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGT
5' ss Score
7.12
3' ss Seq
GTCCCCTCTGTTTCCCTCAGATC
3' ss Score
11.45
Exon sequences
Seq C1 exon
GATGGAAGGGAGTTTAAAATCTCATCAGTCTTTGAAGAGGGTCGAGAGAAATGTCCATATGACCCCTCAAAAGGCTACACTGGCCTGCTAATTG
Seq A exon
GTATGTCAACAACAATATTTTACAGTATAATTAATTTGGTATTGGTTCTTTTTCGGGAACAATTCATGTGATCAAATGTGAATTGAATGATGTCAAAATTTTTAGAGCTTTACTGGAAGATCTCTTAACTACATCTGTCCCCTCTGTTTCCCTCAG
Seq C2 exon
ATCAGCAGATGTACACAGCGTCCCAGTATGAGTTCCGGAGTTTTCCAGATATCCGGCGCAACTCTCCAAACCCCATACTGAAAACAGAGGAGGCTCCGACTCAGTGGCTCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076595:ENSDART00000111365:5
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=0.128
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(6.9=100)
A:
NA
C2:
PF0140314=Sema=FE(8.4=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:
TGGAAGGGAGTTTAAAATCTCATCA
R:
CTGGAGCCACTGAGTCGGAG
Band lengths:
205-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]