RnoINT0132919 @ rn6
Intron Retention
Gene
ENSRNOG00000019737 | Sema4a
Description
semaphorin 4A [Source:RGD Symbol;Acc:1304636]
Coordinates
chr2:187813490-187813878:-
Coord C1 exon
chr2:187813816-187813878
Coord A exon
chr2:187813589-187813815
Coord C2 exon
chr2:187813490-187813588
Length
227 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
ACTTCTCTGCTTCTCCCTAGACA
3' ss Score
10.26
Exon sequences
Seq C1 exon
ATACCCTGGCCAGCCAGTGAGAAAAAAAAGAACGAATGTGCCTTTAAGAAGAAAAGCAATGAG
Seq A exon
GTAAACACAGGTGGCAGGAGAGAGGAGGGGACAGAACCCTGATGTACAGAGACCATCCCTGGTGACCACAGGGGTGGGTGGAGGAGGACCTGTTCCTGTGATTATCTTGTCATGTTTCTTGATTTCAGCTGTTCTCTCCACTGCGGATGCTGGATGGGGGAACATCCTCTAAGACCCCAGGAGGCGGGTAATTAGTCTGACAGCCTGACTTCTCTGCTTCTCCCTAG
Seq C2 exon
ACACAGTGTTTCAACTTCATTCGTGTGCTGGTCTCTTACAATGCCACTCACCTCTATGCCTGCGGGACTTTTGCCTTCAGCCCCGCCTGCACCTTCATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019737:ENSRNOT00000056862:4
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(20.2=100)
A:
NA
C2:
PF0140314=Sema=FE(32.3=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:
TGGCCAGCCAGTGAGAAAAA
R:
AATGAAGGTGCAGGCGGG
Band lengths:
156-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]