DreINT0132884 @ danRer10
Intron Retention
Gene
ENSDARG00000000189 | sema6e
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6E [Source:ZFIN;Acc:ZDB-GENE-040724-119]
Coordinates
chr16:30279428-30279714:+
Coord C1 exon
chr16:30279428-30279550
Coord A exon
chr16:30279551-30279625
Coord C2 exon
chr16:30279626-30279714
Length
75 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
TTTTGTCTGTGTGTGTTTAGAAC
3' ss Score
9.61
Exon sequences
Seq C1 exon
GCGGTGACTTCTACTCAGCCACGATGACTGATTTTCTAGCGAGCGATGCAGTGATTTACCGAAGTTTAGGAGAAAGCAGTCCTGTCCTGCGTACTGTAAAATATGACTCCAAGTGGCTGCGAG
Seq A exon
GTGGGTCCCGTTCTTGAGTTTGTTTATGCTATCATTTAAGGGGTGTTTATGGTGATTTTGTCTGTGTGTGTTTAG
Seq C2 exon
AACCGCATTTTCTTCATGCCATCGAGTATGGGAACTACGTGTACTTCTTCCTCAGTGAGATTGCAGTGGAGTATACCACCCTTGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000000189:ENSDART00000135723:8
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(9.7=100)
A:
NA
C2:
PF0140314=Sema=FE(6.9=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:
ACTCAGCCACGATGACTGATT
R:
TCCACTGCAATCTCACTGAGGA
Band lengths:
181-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]