RnoINT0132985 @ rn6
Intron Retention
Gene
ENSRNOG00000014650 | Sema4g
Description
semaphorin 4G [Source:RGD Symbol;Acc:1310436]
Coordinates
chr1:264741911-264742638:+
Coord C1 exon
chr1:264741911-264742399
Coord A exon
chr1:264742400-264742489
Coord C2 exon
chr1:264742490-264742638
Length
90 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGA
5' ss Score
6.12
3' ss Seq
ACTGCCTCTCTTCTTCCTAGAGC
3' ss Score
9.84
Exon sequences
Seq C1 exon
AGAGAACAGAGAACTGGAACTTGCCCTGAAGTTGGGGGCAAGGTGACCCCTTCAGTACCCTACAATTCTGCTGGGATCCTACAATTCCCACTCTCCATGGATTTGATACAGAAAGGCACGTGACCCACCCCTCCCTCCGACTTCTCACCTGTGATTCCATGGCCACACAACCCTGTGGCTCCATGTCCCCGCCATTCCAGGATCCTCCATGGCCCCATGACTACTTGACCCCCATGACCTCATGACCCCTCACCTCCATGTGATCACACCCTGGACTTTGAACCCAGTGACTGATCTTCCCCTCCCCTCCTGTGACTCTTCCGGGCTGCCCTTGGGGTCTTGTTGGTCTGAACTTCCCCAGGAAGATGTGGGGGAGGCTCTGGCCCCTCCTCTTCAGCTTCCTCACAGCAACAGCAGTGCCTGGACCCTCACTGCGGAGACCATCCCGAGAGCTAGATGCCACCCCACGGATGACCATCTCCTATGAAG
Seq A exon
GTTAGACCCCCAACCTGGAAAGATTATGGCTGCCAGAGCTGGGGACAGGAAGTAGCCCCCAGGGGGGCTCACTGCCTCTCTTCTTCCTAG
Seq C2 exon
AGCTCTCCTGGATCAGGCACTTCAAGGGCCAAGCCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCCCAAAGGCTGTTGGTGGGAGCTCGAGGTGCCCTGTTCTCTCTCAGTGCCCGTGACATAGGAGATGGGACTCACAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014650:ENSRNOT00000019956:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.013
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0140314=Sema=PU(48.6=70.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTCCTCTTCAGCTTCCTCA
R:
CCTCCAGCAGCAGTGTTGAAT
Band lengths:
168-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]