DreINT0132873 @ 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
chr16:30283855-30284427:+
Coord C1 exon
chr16:30283855-30284010
Coord A exon
chr16:30284011-30284253
Coord C2 exon
chr16:30284254-30284427
Length
243 bp
Sequences
Splice sites
5' ss Seq
CAGGTTCGC
5' ss Score
5.28
3' ss Seq
GGCTTATGTTCCTCATGTAGGTT
3' ss Score
8.65
Exon sequences
Seq C1 exon
GCCAGGGTCGTGTGCTGGTGATGGCCCTGCTGCTGGTTACAAGTCCTCCACAAATTTCCCTGATGAGACTCTTACCTTCATTAAGTCTTATCCACTAATGGACGAGGCTGTGCCGTCTGTCAACAACCGACCCTGCTTCACACGAACCACCAGCAG
Seq A exon
GTTCGCACACAAACACACACATACGCTCCAAGAGAAATTAGACACTCGTCCACTCATTATTTTCGCACTCTCTCTTTATTTCCCCAGTTGTTTCTTTAACATCTGCATGTCTTTCTCCAGAGGAGCAAGCTGCCGTTATTAGTGTTGGAGAATAAATGAGCACTTAGCTGTTGGGATGAAAGACAAAAGTTTTTTTTTGTGATTTTTATTTTGTCAACTAATTGGCTTATGTTCCTCATGTAG
Seq C2 exon
GTTCAAGCTGACCCAGATTGCAGTGGACACGGCAGCTGGCCCATATAAGAACTACACTGTCGTGTTTCTGGGGTCAGAAAATGGACATGTCCTGAAGGTTTTAGCTAGCATGCATCCAAACTCCTCGTACAGCACTCAGGTTTTGGAGGACATCGATGTTTACAACCCTAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000000189:ENSDART00000135723:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.189 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(12.4=100)
A:
NA
C2:
PF0140314=Sema=FE(13.8=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:
GGTCGTGTGCTGGTGATGG
R:
AACCTGAGTGCTGTACGAGGA
Band lengths:
293-536
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]