RnoINT0132911 @ rn6
Intron Retention
Gene
ENSRNOG00000019737 | Sema4a
Description
semaphorin 4A [Source:RGD Symbol;Acc:1304636]
Coordinates
chr2:187816510-187817578:-
Coord C1 exon
chr2:187817381-187817578
Coord A exon
chr2:187816678-187817380
Coord C2 exon
chr2:187816510-187816677
Length
703 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGT
5' ss Score
8.34
3' ss Seq
GAAAGTGCCTGTTTCCTCAGAAC
3' ss Score
5.27
Exon sequences
Seq C1 exon
GTCACAACTCGAGGTAGAAATTCTGGTTTCCCTGGCCTGAAACCCACACTGGCTCTGGCAGGATGAGTGCCTGGAGGGCCGCGCTCCCATTCCAGCCAGGCTGAGCCTGCTTTCCATGCCCGGACCCCCTTCCTTGCCTTGGATGGCACCCTGATTCAGGGTTTGAACACAGGACTTCTCCGTGTGGCTGGCTCAAGG
Seq A exon
GTATGTGAGATAATGGTGGGGAGTGAGGGGGACTTGCATTCAGTGGCCACAGGGAGGCTGATGCAGAGCTCCAAGGAGGCAGACAACAGAGACAGGGGGGCTGGAGAAATTAAGAGTCTACCAGTGACTCCCGCCCCGCCCCTCCCAGGAAATCAGAGGACTGGCCAGACTGGTAGATAAATTGACATGCCCCTACCCCTAAGAGGAAGGCTAGATGGGCTCAATTAAGCAAGAGTCAGAGCCCCTGGGGCTGGGGGAGAGGGTAGGCTGTCTGCCTGGGTTGAGGTGAGTAGCGAGGTATGAGGTGTCACAGTGCCGAGTGGCAGGCCAGCCTGGGGACTCTACCTTTTGCATACAGGACCTAGTTCCCCAGAAACCTTTTGCCCAGGGCCAGAGATGATCAGAGCTCTGGAGTCTAGGGCCAGGAAATACTAAGGGGCAAGAGTGAGAAGGAATTTTCCTGTGAGGCAGGTGAGAAATGGTAAGGTAGTTTTTTAATAGTAGGAGACCAGAGGCACAGCGTAGGCCACAGCAGCACCCTGCACAGAGGGCATCAGCAGGCAACATCGAATCTGGGAATGCATGGAAGTGAGACTCCGAGGGCCCTTCCAGAGAGGAACTTCTGCCCCTCCAGGGCTTTCCTATTGGCCCTCAGGAAGGGTGTGGTAAGCATGGCTAACCCAGAAAGTGCCTGTTTCCTCAG
Seq C2 exon
AACCATCTGGTGACTGTCTCCGGATGACCATGGCCCTACCATCCCTGGGCCAAGACCCCTGGAGTCTCCTGAGTGTTTTTTTCTTCCAACTGTTCCTGCTGCTGTCACTGCCACCAGCTTCCGGGACTGGTGGGCAGGGACCCGTGCCCAGAGTCAAGTACCATGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019737:ENSRNOT00000056862:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.122
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCTGGTTTCCCTGGCCTGA
R:
GCATGGTACTTGACTCTGGGC
Band lengths:
345-1048
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]