GgaINT0104672 @ galGal4
Intron Retention
Gene
ENSGALG00000008509 | SEMA3E
Description
semaphorin-3E precursor [Source:RefSeq peptide;Acc:NP_989573]
Coordinates
chr1:9444254-9447624:+
Coord C1 exon
chr1:9444254-9444295
Coord A exon
chr1:9444296-9447457
Coord C2 exon
chr1:9447458-9447624
Length
3162 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
TATGTGGTATGCTTTTCCAGCAA
3' ss Score
6.56
Exon sequences
Seq C1 exon
GTGCCAATTCCTATTCTTTCCATGGAAATCTCTTCAAAAAGG
Seq A exon
GTAAGTGATGAGTTTCACATGCCAAAACTGTGACTCAAATGTAATAAAGCAATAAACATTAGATAGATAGATGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGGGATATAGCTGTATGTAATCTCCAACAAGATCTGGTCTGATAACAGCAAATCCTTTTGTAATGCAAATTCTGGTTCTGTTCCTTTATGAAGCATTTATGTTTTCTAATTCTAAGATTACACCTGTTAAACCAGTCTCTGTGTTTTACATGTGTTGTTCACACAAAAACAAGTAAAAAAGCAATTTGATCCATGAGATATTGGCAGAGTAATCACAGTAGGGAGTAGCTTGGTGGATATGACAACTCAAGAAAAAGCTCCTTGGTGATAAATGCACATGGACTTCAGCCCCATGACAACATAAGTTCTAAATAAGCCTTACTGGATGTCCCATATACTCAGTTGCCAATGAAGGTAGAGCTATTTGGACCTGATTCCCATCAGAGTCTCTCCTAATAGCTCTTGGGAGAGACTCAGAGTCTCTCCTGCTAGTCTCTCCTAATACAAATACTTAAGTTATTGTTCTTGTAAAAGGATACTCATCTGTACCCTCTTGTGGATATGGAGCCATTTCAGGATGGAGCCACTATAAACATCCCAGGATGCTTACTTCTTAATGTAGACAACTGTTGAAATATAGGTTCATAGAAATACAGTGAAACAAAGCTAACAAAGAAGGAAGATTGCATTAATAGGAGGCGTGACTGTGCCCCAAAGATCATTTTAGTTTTGGTGGCTGGTCAACTCCCATTTTTTTGTAGTTAATGTAGAAAGACAAACTCCTCTGATAATGATTTGGGTGAGGATCCTAACTTAAATTTTTTCTGAATTATTTCCTGGATCAATTTATTTTTTCCATAGACTTTGAAAGGAGCTCTGGAGACTAGGTTGCCTAACATCACAGTTTTGTGAACGTTTTGTAGAATCACAGAATAGTTTGAGCTGAAAGGGAGTTTGGAATAAAGTATCATTTCAGATGTTTGTTTATTTGCTCTCAGTGAAATATCATAGTAAATGGATCATGCTGGAAGAGTGAGAAGGAGATACTATATCAAAAGGGAAGTAGTCTGCCTCTATTACACCCAAATCCCAAGAGGTCTGCTAACTACAGTTTCAAGAAGCACCTGGAAATTATGGAAAGAATAGTAGAAGAGTTGCCAAAACTATTCAGCAGTTGAAGAATAAACGTTCCTGCAGGCAGTAGAAGTAGCTCTACTTTTTCAACATATCAAAGAGAAGAGGGAGAGACAACTGGGCATCCAGACATGGAATTTTACCCAACTTAGTGACTTGCTGTTGAAGCAAAGGAGGGGGAAGGCTTTGAACATTGATCTCAAAGCAATAAAAGTCAATTCAGATTTCTGAATATAGGCAAATTTAACCTAGAAATAGCATGCAGTTTCCTGTTACTAAGGAAAATTAAATGTTGGACTGCCTGTACAGGGCTGGCACAAAATCATTTTGTATTTAACATTAGATTTGTGCACAGAAGTATAATTTAGTTAGGTTTATGTGAAAAAAAAAGTTATGCAATTTCTCTGCCCAAACATTTTTTTCTAGTCTCCTTTAACTGTGAAGGTTGTGAGACTACAGAGATCTGCTTGCTAGCTTTGTTCCAACAACCTTATAACATCCACCAGTCTTCACTATGTCAGTGATATAATAAAATATCTTGTTTCAGGCTTGAGCTGTTTATCTTTGTGGCTAGGAGAGAATGTTCTTCTTTGATGTCCTGTTTGCTAGATATTGGATGATTTTTGCTCTCCTCTGATGAACCAATCTGTACAGTACACCTTACTTTTTTTAAAAGATGAAAGAGAAAATTCCATTTTTTATGTGTCATTGAATGTGCTGTTCACATCTTCTGAGACAGTCATGTTTCAGCCTTGTCGGACAAGAAAGAATTCCCCTCTAACAAGGATCTTAGGTTTAGTTATCAGATTGAGTTCATGTTTATCTGTATAATCTCAGCTGAAGAAGTCTTCAAACATTGCTGTTACCAGCCTCTCCTGGTCTCTTCCACTGGCATGTCTGAGAGTTAAAATTAGTAACCTAAAAAGATAGAGGAGGTGTAATCAGGAACAAGAGTGAACTATTTGGATTAAATTTCATGGTTTGTGATAGGCAAGCCAGGTTAAATGAGCTAACTGCATTTTCCAGCTTTATGCAATTTTAATATAACATTCTGAAAGCTTGTGCTTTGTTTGGCCATTTGGATAAACCCAGTCCAGAGTTCATAAGGAATCTTTTTTTCTGACTGGAAAAACAGTGGAATTGAGCCATGCAAAAGTATTTCCTATTGCAGTTCATATTTCTGTGTTCAGTACATTTTCATTCACCAGTAACAAGATTTTTCTTAAATCCCTGTAAACTCAAGATGTTCCTTTCTGATTTTATTATCCCATCAGCTTCTGAATCACATTGATCATATTTCATTTGCTTTGTAAAAGAAAACTTAGATGACTCAAGCACTCTTAGTGTTAGTGCTGAGGACAAAAAAAAATGTAAAGAAGATAAAGTGTGACCAGTTAATTTATAAGAAAAGACTGTACAGTAGCAGAAAAAATATCTACGTTCTTTGTACTGAAGGATTATATCAATCATAGTGCTATTGTGCATTTTTATGTGTGAGCATATTGTATGCAGGTAGCAACATCAAGGGTTAAATGTACCTGATAACTCTAGTTTTAAGGTTGAGGTTGCTTGCAACTTTTTTCAAATATGATCTTTGATTAGTATTTTATGTCAAAGCTTTTTTTGCAGATTGGTTAGGTGACAGATGTGTAAGGAGGGAGGCACTGAAAACTACCTCAGGGAAGAAAAAGGAATGTAAAAGTCTGTTTAAACAGAAAGCTTACAAAGCTGAAACTTCAAAAGTGAGGAAATGCCAAACCATATTTGCTCATTCTAATTTCCTTCTGTTCCACCATCCTCATGCATGAGAGTTTAGATTGTTGTCAGTTTTTCTACAGAGTAACTCTGCCTCCCACAGGGCACAGGCTGGATGCACAACAAAGCTGAAATTAATATTTCTTTAAAACTCCACTTGTTACAGAAGTCATATTGGAAGTTCTAGCAACTTAATCATATGTGGTATGCTTTTCCAG
Seq C2 exon
CAACAGCTCTACATTGGAACTGAGTCAGTCATAGCACAAGTGAAGTTTCACCAGTGTGACATGTATGGCACAGCCTGTGCTGACTGCTGCCTGGCTCGAGATCCCTACTGTGCTTGGGATGGCATCTCCTGCTCCCGGTACTACCCCACAGGAATGCAGGCAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008509:ENSGALT00000013861:13
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(3.0=100)
A:
NA
C2:
PF0143720=PSI=PU(65.5=67.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
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]