GgaINT1027091 @ galGal4
Intron Retention
Gene
ENSGALG00000013370 | Sema3F
Description
semaphorin-3F precursor [Source:RefSeq peptide;Acc:NP_989589]
Coordinates
chr12:3177715-3178543:+
Coord C1 exon
chr12:3177715-3177777
Coord A exon
chr12:3177778-3178423
Coord C2 exon
chr12:3178424-3178543
Length
646 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
ACCGTCCTCTCCTTTCCCAGGGG
3' ss Score
11.73
Exon sequences
Seq C1 exon
ATCCACTGGCCTGCCTCCCAGCAGAGGATCGAGGAGTGCATCCTGTCGGGCAAGAACAGCAAT
Seq A exon
GTGAGTGTTAGGCAGCGAGCGGAGGGCTGGCATCCTGCTGGGGTCCTGCCTGGGTGGCGGGTGACTTTTGAGTTCCCCACGCCGTTGGTTGCCGCAGCCATCCCCGGGGCTTTGATGGCCACCGTGAGCCCACTTCTGGGGTGGTGGCCACTGTGCTGATGGCTGTTTGTGCCTTCGTGTCCTCCCTTGGAGAAGCTACAACCACCGTGTCTTGGACTTGCTGAGACAGGGTGACGGTCCCAGGTGTGACCGTGTCCTTCTGTCCCTTCTGTCCCGGATGGGCAGAGCTCCCCACAGGTCTTTATCCCAGTGTCAGGGCTGTGCCCTCAGGTGCTCCAAAGCTGTGGCCCACGTCAACCTGTGGCCCACGTCAACCCATAATCTACGCCAGCCCATGGTCTATGTGAACCCGTGGCCCATGCCAGCCCGTGACCCACACCATCTCATGCCCTGCACCAGCCCCATGCCCCATGCCAGCCTCCTGCCCTCCTGGCTCCCTGGTCCCCTTCCTGCCTTCCCAACTCTTCCCCCGGGGGATGGACCCCACTGTGCCACCCCAAGTATGGCTGGGATGGTGCCCAAGGAGCGTGCTGTGTACGGTGTCCTTGGTCCCTTGCACTGCTGTCACCGTCCTCTCCTTTCCCAG
Seq C2 exon
GGGGAGTGTGGCAACTTCATCCGCCTGATCCAGCCCTGGAACCGGACTCACCTCTACGTGTGCGGCACCGGCGCCTACAACCCCATCTGCGCCTTCATCAACCGTGGGCGCAAAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013370:ENSGALT00000035766:4
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(4.5=100)
A:
NA
C2:
PF0140314=Sema=FE(8.8=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:
ATCCACTGGCCTGCCTCC
R:
CTGTGCTTTGCGCCCACG
Band lengths:
183-829
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]