DreINT0132705 @ danRer10
Intron Retention
Gene
ENSDARG00000074414 | sema4ba
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4Ba [Source:ZFIN;Acc:ZDB-GENE-070705-31]
Coordinates
chr18:25800866-25801531:-
Coord C1 exon
chr18:25801416-25801531
Coord A exon
chr18:25801024-25801415
Coord C2 exon
chr18:25800866-25801023
Length
392 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTT
5' ss Score
8.4
3' ss Seq
TTTGTTTGCATTTTCTACAGGGA
3' ss Score
9.2
Exon sequences
Seq C1 exon
ATGACGGCAGAATCCACAAAGCCATCAACGTTAAAAACAAGATGTATATCATTGAAGAGCTGGTGATTTTTCCTGAGCCTCAATCCGTGCAGCACATCGAACTGGATGATGAGAAG
Seq A exon
GTACTTCATTTTCTTCTTAAACTCATTTACATTCTTTGTACTTGTTATGCACACTAGAGAACGTAATGCTTTAGTGAAATGACTGCATGGCCGACAAAGAGACCCTTCAGCTGTAGAGATACAGAGGCCTGGAAAGGAGATAATTGCGTCCATGTTTTCTCTCTTGGGAAAAGCGAACAGATGGGAAACAAACAGTGTCTGCTCTGTCTATATTGTACTCTGTCTATGCGTTACACTGTAAGAACTATTTTAAAAAGGATTAATACCGCTTTCACTGCAATTATCATCTATTAGCATTTACTGTATGTGTACCAAGCTGCTTTCTGCACTGGAAGTATGATTGTTTGTTTTAAGAAAGTGTCTCATTTCTGTTTTGTTTGCATTTTCTACAG
Seq C2 exon
GGACTGTTGTTTGTGTCCAGCTATTCTGGGCTGGTGGAAATCCCTCTTGCCAACTGCTCTAACTACCAGAGCTGTGGAGAGTGTGTGCTGTCTAGAGACCCATACTGCGCCTGGACAGGGAAGCAGTGTTCTAATGTCAAGCATGCGTCCTCTAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074414:ENSDART00000143899:12
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(8.6=100)
A:
NA
C2:
PF0143720=PSI=PU(70.0=66.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACGGCAGAATCCACAAAGC
R:
TTAGAGGACGCATGCTTGACA
Band lengths:
270-662
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]