GgaINT0061028 @ galGal4
Intron Retention
Gene
ENSGALG00000002294 | SEMA6A
Description
Semaphorin-6A isoform4 [Source:UniProtKB/TrEMBL;Acc:E1C1C2]
Coordinates
chrZ:72454578-72458079:+
Coord C1 exon
chrZ:72454578-72454795
Coord A exon
chrZ:72454796-72457947
Coord C2 exon
chrZ:72457948-72458079
Length
3152 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
TGGGAAATATCACTTTGCAGCAT
3' ss Score
4.28
Exon sequences
Seq C1 exon
GTAGTTTTCCCGAGGGTGGCTCAGGTTTGCAAAAATGATATGGGAGGATCTCAGAGAGTGCTGGAAAAACAGTGGACTTCCTTCCTCAAGGCTCGTTTGAACTGCTCAGTTCCTGGCGATTCACACTTCTACTTCAACATACTGCAGGCAGTTACAGATGTTATCCATTTCAATGGCCGGGATGTTGTTTTAGCAACCTTCTCCACTCCATATAACAG
Seq A exon
GTAATAGGCGCAATAATCTTTTGTTTCCTTTACGTTTTGCTTTTCATTGCAGTTTCTTCTTACTCTATAAAGATACAAGAAGTGATTGCTCGTGCAATGTAATTATTATGTACCATGCACTTACCAATAGTTTGTGTTTCATTTTAAGATACCCTGGCATTGCTTACTACATTTTATATCTGATAATTTAGAACAGCTTTCAAACATTTACTATCTGGACATGTTCCTTGGACATTTTCTTTACGTGAGAATAATTCAGACCAGCCGCCAAGAAGTTTTGCGGAGTATAACTCTCAGAATGTTGTTACAAAGAGAAAATACAGTTTTTCTCTCTCGCGGAGAAAGGACTGAGCCTGTCCCATTTGTCTGTCCCATCCTCTTTCCCTCTGTTTCATGGATCTGTACTGACTCCTGTACTCTCCCCTGGGAAAGCCATGGACCTCAGCCTTGTTGCAGGCTGCAGAGGAAGTTCTCCAGATCACAACAAGAGGAGCAGAGAGGCTGAATAGAGCTTCACAGTCTATCAGTTCCTGCTTTGCCCATTTTATTTTCATAGAGGGATGTTTTGAACTCCTCACACTTAGCCAGTCAGTCTTATTAGTTTTTACCTCCCTGGAGCTGCACCCATGATGGTTTTTTTTGTTTTGTTTTGTTTTTGTTTTTGTTTTTTGTGAGCAAGAGGGAAAGGAGGAGCTCTGCTAAACAAAAATACTCTTCCTTTTCCTGACCACATCAGCGTGTCTTCATGCTTCAGAGTTGACACTCAGGAGTCCCAGTCTTGCTTAAGCAGAGCTGTAACACAGCAAAGAGGTACCAGTAAGAAGAGTAATTCCTCAGGCACCTGTGTTTCATTGTACATGTGGTTTCCAAATGCACCGGTTCACAAGTTAGGAATTTATTGCCGTTATACATTATACATGTTTCTCTAGAAGTTATTATAATAGTAACTATCTTAATTATCAAGGTATCATGGAGAAGTTAGAAAAGCATTCATAGTCTAATTAAAAGATATATTGCTGATTCACAGGGTAATGCTTGAGCTGAAAGGGGAATTTTATTGCTGAAATTCATCTGGTTTTACAGCACACTTGCCACCTTTTGTCAGAGCCTGGCCTTAGTAAGATCATGCACAGAGCTGAATTCAAATGAGAGTAAGCCCAGCCCTCTATTGTTTAATCACTTCTTTTAACTTCAAAACAGTAGGAACTTCAATAGAGAAGTCACCAGGAAATAAATTTTTAAATTAAGATGATCTCTTCTTATGCAAAATGTCCTAATGAAAGCAAGCAAATGGAGAATCGTCGTCAGCAAATATACTGTATCTTGAGATTATCTATATATTGAGATGTCTTTCTACTCTGCTAGTATTTCCTGTGGTGTGTCATGAATAATCCTTTACTTTTAACTCTGCATTTTAAAATCTAAGTACTTGGTTCTAAAATCAAGATCCTATTTTTGGGCACCATTTTTTGCCAGGCATTGGAGATGACAGGAAGGCACATAGCTTTGGGGACATCTCATAAACAGACCTACCGCTGACATGGGCACCCCTCTCTTATTCCTCCTTCTCTGAGGAAAAGCTTCAGCACGTGCCTTTCATCTCTGGAACAAGAACATCCACCTAGAGTGATCTGGAAAACATTCCACAGTTCAATCTGATATCAGATGGTGGGAGTTGGTGATGGCTTGTAGTTAGTGCATGAGAAATTGCTTGGCTGTGACCCACAGTCCTCCATCCACATTGCTTTATGGCACTGTGGACTTGCTAATTGCCATCCCCCATAAAAAAGGATTTTGCAGCCTTATCAGGAGTGATCCCTCCATCACTTTGGAAACGTGTTGAAGACTGTTCCCTGCACATCTAAATAGTAAGCGTGGAGATATTAGGGTTGCTTAATTCAGCAATATGCAAGACCTATCTGAAGTGGGAGTTGCTGTGCCTTTGGATGTGGTCCTGTTTGCAGCCAAGTACACCCCCGACTGACCCTAACATCAAAATACATGTGGCTGCCTCTCCTTATAACTATCGCTGTGTAGTATCACATTAATGTAAAGCTTTGAAGTAAGTTTCCTTCCATATAAAAACCCAGCCTGTGGAGATCAAAGTTAGACTATTACTGTCTCCCTCCTTGTTGTTTCCTTCAGTAATGAGCATTTCAGAATCTTGCAACATTCAAACAATTATTTTCTTATCAATTCATGCACCCTTATAAGTTTAATTTTATTCTCTGAAAACAGTATTACATTTCCTACATTTTCTCTTTGGTATGTAATAGCCTACCAGCTAAAAGCAGGATTGAAAGCCTTTAGCTCATTAGGTTCGTGCTATTTATCTGATAAAATCAAGCAGAGAAATCAGACATGAATACAGTAGTTAATGTGTAAAAAGTGAAAGGTGGATAAATGAATAATTCATGCTTCCAAGTGAGTGACCATGGGAAAATCCTAAGCTTTTCAGAAAGTAGGTAAGGTTGTAATTATGTTTAGACAATGCTACCATGCAGTTGCTTGCAAATTTACAACTTTATCATCTAAAAATACAATTGTATTTGCTTCCACAAGCTCTTTACACCTCACTGAGTGATTGAGTTAAGCAAATTGCTGAGCATAGTTAACTCCTTTCCACTGGGAGAACCTGATGGAGATGAGGCTGTAAGAGGATGGAGTAATAATGTGCAAATGGAAATGGCACGGTGCAGTACGCTTCCAGTTTGATCAGCTCCAACTTATGATCCGTCTACAGTGTATTTTTGAGGCATGACAGGGACTGTGAGAATTCATACTGAGAAAATGTTGTGACTTACAAGATCTTAAATTTCCAAATAATGGGCTCTAAATGTGAGTAGCTGCTACTCCTCATGCATTACCAGTCATACAGAGAGTTTTCCAGATTCTGTTCCCTTTTCAAGATTATTGCAATTAATTTTCTCTATGGAGGCTTTGAAACAAATTGTGCTGGCAGGAGCTGCCTGCTGATTGGTACATTTCAGTCTTTTCCATGGAGCTGGATTTTCCTGTCAATACTCAGAGGTTACAGAGTTCAGAATTGAGTAGCCTGTGACAGGAAGACTTCTATACAGTGTGTTTTTCACTCAAGATTTTATGCATAACTGCAGAGTGACTAACAATTTCTGGGAAATATCACTTTGCAG
Seq C2 exon
CATCCCTGGCTCTGCAGTCTGTGCCTATGACATGCTTGACATTGCCAGTGTATTCACTGGGAGATTCAAAGAACAAAAGTCTCCAGACTCCACATGGACACCGGTTCCTGATGAAAGAGTTCCCAAACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002294:ENSGALT00000003608:10
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=0.333
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(16.7=100)
A:
NA
C2:
PF0140314=Sema=FE(10.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]