RnoINT0132892 @ rn6
Intron Retention
Gene
ENSRNOG00000017704 | Sema3f
Description
semaphorin 3F [Source:RGD Symbol;Acc:1308514]
Coordinates
chr8:116448491-116450252:-
Coord C1 exon
chr8:116450160-116450252
Coord A exon
chr8:116448585-116450159
Coord C2 exon
chr8:116448491-116448584
Length
1575 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
AGCCCCTCTCTACCCTGCAGGAT
3' ss Score
9.37
Exon sequences
Seq C1 exon
GCCCCACCGTGGACCCAGATGCAGGTGGTCAGAGGCCGAGGCAGCAGGGCCACAGATGGTGCCGACCGCCCGACGCCCACAGCCCCACGCCAG
Seq A exon
GTGGGCCTCATCCTTCTAGTCTTTCGCCAAGCTAAACGACCTCTGAGCTCAGTTTACCCTGGGCCTGGCCCCAGGGCCAGCCTCCCCAGTGTCTCCCTATACCCTCATGCCCCCACCCCATCCCCACCCTTCCCCTGCAGTGCCCTCAGGTTCTGAAAGCAGTTCCAGCTGGACTCTTGTCAGCCTCAGTGGGACCCCCAGCAGGCAAGAAATCCTGAAGCCACCAGGTGGGGAAGACAGGAGTCCTGGGGACAGTCATGCCTCAGCCCTGAGAATATGTGTGGAGACACACTTGAGCACGTGGCGACTCATGTCTGGGCACGTTTATTGTCCACAGTGGGTCTGGCACATGACTCCTACGTGTCTGTTCCCATGCCTTCCGTGGGTCATGTATGTAGATACAGGTGTCCTGCACACTCACGTATGTGGGGTCTTGAGATAGTGTGTCTGTCCATTAGTCAGGCCTTGGGTAGGGGGATCTGGGCCGGGTAAGGTAAGGTGGGGCTGGGCAGGGGCGGGCAGGGGGGCAGAGGCTGCCGGTGAATGACAGCATGTGAGTATGCGTGAGAATATGTGTTTGTGCGTGACTGTGTATATGTGTGTGTCGTCTGTCTGTCTGATGGGGAGTGCTGAACATCTCAGGCTATCTAGGTTCTGTGTGTGTGTGTGTGCACTTGGGTGAGCAGTGGGCTAGGTGCGCTGGTTGTGTTTGCCGGATCTGTGTGCAGCCCACGTGTGTACAGGAAGTTATGTGAGCAGAGTGTAACTGAAAGCAGACCTGCGTGCACCTTCCCGTCACCATCCTGCCACCTGCTGCCACTTCCTCTGTGCGTCTCTCCTCTTCCCTTTCCCTCCCTCTTCCTTGCCTTTGCCCCCAGGCCTGTGAGCTCATCCTGGTCCCAGGGACTTCGAAGGCCTTCCTTCTAGCATCTTCCGGGGTGAAATGGGCAGTGTGGGGTTGGATTAGCTTTGTGAATTCCATGTGGTCTCAGCTGGATTCCCCCAACTTGGCTGTCTGGGGAGACGTGGAGGGGTAGGAAACCCATGACCTTTTGGTCCATCCTGAGGTCCACAGGTAGAGCAAAAACCTGGAGACATAACCTTGGAGTTCCCTGATTGGACCTGATACTAGGACAGGACCCCGGGCCCTTGCACTATGCCCCCTACCCTACCCAGGTCTGCAGCCCCGCCCCCCACGCCCAAGGTAAACAGCTGTAGCTCAGAGTATCCAGCCTCTGTAGCCCAAGGGGTTTGCTCACACCTTCCAGGCTAGTTGGCCCAGAAGTAGTTTAACCTCTATAAGCCCACCTCTGGTCCCCAAGACCTGGACCTCTGAGGGTTGATTCTTGGGTCTTGCCTGAGGCATAGGATCGGAGTGTAACCCCTTGGAAATGCCATGGACTTCCCCAGGAGACCTGGCTGGCCAGAATTCAAACCGGAGGACCCTGCGAGAGGGGTAGGGGGCGGACTCAGGGTGGCCCTTAAGGCTCGTTCCTGCCCTCGGAACCTTATGAAACATGTCCTTCTTGTCTGTGGGACAGGCCTGGATGTGCTGAGCCCCTCTCTACCCTGCAG
Seq C2 exon
GATTACATCTTCTACCTGGAGCCTGAGAAACTTGAGTCAGGGAAAGGCAAATGCCCATACGACCCCAAGCTGGACACGGCCTCAGCCCTCATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017704:ENSRNOT00000024193:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.742 A=NA C2=0.062
Domain overlap (PFAM):
C1:
PF0140314=Sema=PD(19.8=77.4)
A:
NA
C2:
PF0140314=Sema=FE(6.6=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]