GgaINT0061022 @ galGal3
Intron Retention
Gene
ENSGALG00000002294 | SEMA6A
Description
NA
Coordinates
chrZ:70726775-70728741:+
Coord C1 exon
chrZ:70726775-70726835
Coord A exon
chrZ:70726836-70728678
Coord C2 exon
chrZ:70728679-70728741
Length
1843 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TTCTTTCTTGATCCTTGCAGAAA
3' ss Score
9.24
Exon sequences
Seq C1 exon
GGACCATATTTATACTGTTGATATGGACACATCACATACAGAAGAAATTTATTTTAGCAAA
Seq A exon
GTAAGTAGCTTTTATCATCTCCCAGAAACAGAAGGTAGTGCTCCAAAAGTAATGCCTTCTATTTTATCGTATTGGCCCACAATGTCAAAGACAGTTGGTGGTGGTATAGCAGTAGAGGTTGGACCTCCCCACCAATATTCCATTCCATGTTGTTGCTCTTCGACAAATGGCAGCAGAGGGGAACTCTGACAGAATGCCATCTGATATGGTATTGTGTACAAGCAAGGTTGTGGAATTGAATTCCTCCATGCAGAAAAAATAGCACCCATTGGCATTCATCAACACTTGCTGAACATTAATGGAGACCAAACAGTGGATGTCAGCACAGTGAGGCAGTGAATGGTGTGTTTCAGCAGTGGCAAACAGTGACATGAAAGATAAGCCATGTTCTAGATGGCCATATGCAGCTGTCACACCACAATATGAAGAGCATCTTCACCATCTAATTGATGTGAATCACTTATTGCTGATGACTGTTTTGAAAAAAAAAAAAAAAGTGCTTCGTAGGAGAGAATATGCTTTGTCCAACAGTGTTATTGTGCTTTTTTATCTGTTGTTTCCATGGAAAAAATAGGAGGCATTACTTTTGTAGCTACTTATGTATAATGGCTGTACTATTCCAATTAAGTACACTGAAGCTTTTCATCATAAAAAGCAAATGCTCTTAACATGTTTGCACAGAAATTTTATTCACTTGTGCAAGTAATCTGTAAATAAAATCTTACATAGCAGCACTTTGTAGATGTATTCACATTATCTCCATGGCAAGCTGCATTCAAATTAAGAAGAGCTTTATCTGCATTACCGCGTTGCATATTAACATAAACTTTCTAGAAATAATCTCCCTCCAGCTCCTCCGCATTACACTCACATTGTGTAATAAGTGACAGACGTAGCCTTTGGCCCAGCAGAAGACCGTATGAGTTTGGCCAATGCATAGATTCCACTGTAGGAGAGGAGCATTTGTTGATATATCTATGAAAGGTGCTGAAGATTAGCCTATGTCTTGTTGCTCTTCAAAAAAGGGAGGTCACAGGCTTGTTCTGGAAATAATAGCAATATTGTTATGACATTCATGCTCATTTATTCGGCTTGGGACCCTTAGTGAATGGAAGGTGACTCAGTGTACTACTGGGAAATATTGTCGGAAGGAGAAGTGTAGTGTCTGAGGTGTTACTACTATCTTAAGCCACATTTAAAATAAATATTTATTACAATTAATCAACCTACCACGTTAAAGCATTTCTCAATCTCATTGAAAAAAAATAAAAAGGAGGTTGGTGTTTTTGGCATTTACTTGAAAATGTTGCAGAGAAAGAATGCTGGTAGATGAAATCAGCAGTATAAACAGTCCACTCTCTCAGACTGCTAGCTAACTTGGAACGATGAGCATTACCTGCCTTACAATTTCTTTGCTAACGTAAAATGTCCTGGAATAGATACTCCACTTAGATTTCAATCAGGGTATATAGTCCATAAATGTTTATTTTGATTTGTATAATAATATCAAATTAACAGAAAAGAGCATCTAATGCTTATAGGAAAGTACTTACAAGTTTTAGCCTATTGCAAAATTCAGTTGCCTTAGGATTTAAAATTAAAAAAAAAGGGGGGGGGAGGGGAATGGGTTTCTGGTCTAACGAATAGGTAGCAACACAAAATTAAGTGATTGCTTCACATCACTGATCTTTCATTGTTACGGTGAATTAATCACGGAGAAAGGGTGCAGAATGCTTTTAATGAGTATATGTTCAACAGCTAGTCTCCCCCAGGGGACTTCTACTTCTGAAATCAAATGCAACAACCTCTGGGCTCTAATTGATTTCTTTCTTGATCCTTGCAG
Seq C2 exon
AAATTGACGTGGAAATCTAGACAAGCTGATGTAGACACATGCAGAATGAAGGGAAAACATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002294:ENSGALT00000003608:3
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(4.6=100)
A:
NA
C2:
PF0140314=Sema=FE(4.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
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]