RnoINT0132902 @ rn6
Intron Retention
Gene
ENSRNOG00000018952 | Sema3g
Description
semaphorin 3G [Source:RGD Symbol;Acc:1306079]
Coordinates
chr16:7312107-7315390:+
Coord C1 exon
chr16:7312107-7312237
Coord A exon
chr16:7312238-7313503
Coord C2 exon
chr16:7313504-7315390
Length
1266 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCCTCCTACTCCCCCTACAGGTG
3' ss Score
12.41
Exon sequences
Seq C1 exon
AAGCCTCGGGACTGGTGACCAGAGTCTTTGGCACAGAGCACAACAGTACCTTCCTTGAGTGCCGGCCCAAGTCTCCCCAGGCTGCAGTGCGCTGGTTCTTACAAAGGCCAGGGGATAAGGGGGCTGACCAG
Seq A exon
GTGAGTGGAGACCTCGTCTGGAGACCCACTTTTCTCCCTCAACCCCAAACCTTAAGTTCTAGAAAGGGACTCTGGAGTGAGCTAGCCAAGATCTTCCTAGGAAAAATGTGGATTATACCCTTGGGTACCTATGAGGAGCTGCCCCCATTTCTGCTTCTAGGAGTGCCTAGGCTACGTGTAGCCCCAGCCTCCCTAGTCTGTGACAGGGTGCTGCAGGTTGAGGAGAGGGAATGGGGACTAAGTTGTTCTGGAAGTTCTCATGCTAATGCATGTGCTCAGCTTTGAAGGGATCTCTTCCCCAGAGTTTCCTAATTCTTCTCTGCCTCAAGCCTGGCCCCTGACCACTACCTTCCTTCCATTCTTAGCCTCCTGCTTCTTTTCTCAGAAGCAAGTTGTCTGCCCAAGTCCTCTCTTCCCCCTGACTGGGAAGGTTTGTCAACCCCTAAGATGGCTTCAGTCTAGGGCTTGAGGCCAAACATGGGCAGAGCAGTCTGGAACTGCTTTCCCATGGGGAGGGGGAGAAGGAGGGGTTTGGTTACAGGAGGGGCTCGTCCTCCAGCTCAGGAGCCAGGGGAGGCCAGTCTGGGACCAGCTGTAGGGCTGAGCACTGAGGAGACTCCCTGGAGTAGGGAGAGCAATAAGATGAGGTTACACAATGCTAACCACCCAGGCGGTTCACCCTCTGCGCTCTGATGCACAGGCAGGGTTAGCAGCAGAGTCTTGGGCTCAGAGCCAGCTCTTGCCTCCCACACTCGAGTGGGCACTTAGCCCACCCCAGGCCTGGGCTGTGGGCCTCACACTGAGGAGGAGTGAACAGGACAGGCCAAGACAGGGAAGGCCCAGCATGACTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTTCTTTAGTTCAGAGTAAAACCTTATAGACAGGAACCTAACTCCTCAGCTCCCTGGGTGCCTGTGCAGACTTCCCTGAAAGTCTTAGGGCTCTGACCTGGGATACACAGCCATTCATTCACTCGTAGGAAAACCTTCTTCATAGTTCCTTGCCCTCCTGGGCAGAAAGGTGAGGCCTGCCTGCCTGCTCATGGTCTGTCTGAGATTCTGTCAACTGGTTAGGCTCACGGTGGGAAAGAGGGAATAGGCAAGGGGGGAGGGGCAGAGCTTGGACCCCGAGAATCATAACCGTGGAAAAGCAGAGGAAAGAAAACCAGGTGAACGTCCTCCCCAAATCCTTGCTTATGTCTCTTGTACCCTCCTACTCCCCCTACAG
Seq C2 exon
GTGAAGACAGATGAGCGAGTTGTGCAGACGGACCAGGGGCTTCTGTTCCGAAGGCTCAGCCGCCTTGATGCAGGGAACTACACCTGTACCACTCTGGAGCACGGCTTCTCCCAGACCGTGGTTCGTTTTGCCCTGGAGGTGATTGCGGCTGTGCAGCTGGACAGCCTGTTCCTTCGGGAGCCAAGGCTGGAGGAGCCCTCAGCCTGGCGAAGTGTGGCTTCTGCCTCACCCAAGACTTGGTATAAGGACATCCTTCAGCTCACTGGTTTCGCCAACCTGCCCCGCGTGGATGAGTACTGCGAACGTGTGTGGTGCAGGGGTGTCGGGGAGCGCTCGGGCTCCTTCCGCGGAAAGGGAAAGCAGGCGAAGGGCAAGAGCTGGGCGGGGCTAGAGCTGGGCAGGAAGATGAAGAGCCGGGTGCAGGCTGAGCACAATCGGACCCCCCGGGAGGTAGAAGCCACATAGAAGATGGCTGAGGTGGGGGTGGTCGGACTGGGCTGGGAGACTCAACAACCTCTCTCTCCCACCCGGCTAGGAAAAGGAGTCCAGGACGCCTGATTACCTCTTAGAGAAAATCTCTACCACCTACAGGAAAGACCAGGGGCTGGTGGGAGGGGCCTTGCATCTCAGCCTACTCCCGGCCCTTCTCTGTGTTCTCAGTCCCAGGCTGGAACTGGCACCTCCAGACCACTTGTAGTCCCAAGGGGCACGCTATTTGTTCTCAGAGATGGTGTGGCTTCCGGAGCACATTTCCGGTTGTGCCCAGAGGCAAGTTGGGTGGGTTTTTCCCAGCTTGCCAAACAATGGCCATTCTGAGTGACCCTCTGAGTGGGTGTACGGGTGGCTCTGAGGGGGTATATTGGGAGTCCGTCAGAGGAGGGGAAAGTAGATTCCTAAGGTAGTACCCGTTAAGAAACTCTTGCCCCAACAGAGGTGTGAGAGAAGGTGGGAGGCGCTGCGGAGGTGGGGTCGCGCTGGTTACCTGCCTTCATGCTTTGGAATCTTTGATTCCTTGTGTCCGCCCACTACCGTCTCATACTCACAGAGGCAAGACTTGCTGGAACCTGGAGGTGGCCTGGGCCTCGCCCCCTTTTTAAACCGGAAAGATTGTCTTACAGTACGATACCCTTTTCCCAGGTCCTAAATTATCAGACCAGGCTTGCCGGGGTGCCCACACGTCACCATCAGAGCCACTTCCTGAGGATCAGGGGAAGGTTCTGTGGACCAAAGAGAGGAAGAAGGCAGCTGGAGGGTAGGAGTGGGAAGCATGGGCTACCTTTCTGAGGGCGAGGCGGGCACGTTCAGGCCTGGGAGGTTAGGAATGGATGGACACTCTGAGAACTGCAGCCAGTGATCAGGATCAGCATCCTGGGCTTTGTCTAGAGCCACAAGGAACTAGAGACAGGTGGGTCTGTGGCTCCATGGGCAGGTGTCATCAAGGATCAAAGTGACAGCAGTTGGTTCAGGAGCCACTGGGCATGCCAACTATTTCCAACCCTTCAGTCTCTATTGAGGGGGTCATGAGGGTTCATTTATAAGACCCCCATGTTTTTTTGTGGTACTTGGGATTGAATCGAGGGTCTCCTGAATGCTAGATAAATGCTCCACCACTGAGTTAGAGCCCGGCTCTCTCTGTGGGAGAACAGGAAGAAGAAAGCTGGTATGGTAAATCCTGCTGCTTTGGGGGCTGGGGTTGGGGATGAGTGACAAGAGCTCATCTGGCCTGGGCCTAGGGAGGAGGAATTTTGCCACCGATAGTTTCTGCAGCTTGGAGCAGAGAGGGGGAGGAGGACAATTAAATGAAAGCTATTCCCAGCCTGAGGGTGAAGAAGTTAGTGACGCACAAGGCAGACAAGAGGGCATGTTTGAGCTCCCTGCTTTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018952:ENSRNOT00000025656:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.156
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(0.1=0.0),PF0004720=ig=PU(48.4=68.2)
A:
NA
C2:
PF0004720=ig=PD(48.4=19.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTCTTACAAAGGCCAGGGG
R:
CACACACGTTCGCAGTACTCA
Band lengths:
349-1615
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]