GgaINT0067166 @ galGal3
Intron Retention
Gene
ENSGALG00000010697 | SEMA4D
Description
NA
Coordinates
chrZ:42885694-42889981:-
Coord C1 exon
chrZ:42889830-42889981
Coord A exon
chrZ:42885870-42889829
Coord C2 exon
chrZ:42885694-42885869
Length
3960 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
TTTTTTCCCCATGCCAAAAGAGG
3' ss Score
1.42
Exon sequences
Seq C1 exon
AACCAAACTTTGTTTTTGCTGATGTGGTAAGAGCAGATCAAAACAGCACAGATGGAGAAGACGACAAGATATACTTCTTTTTCACCGAGGTGTCTGTGGAATATGAGTTTGTTGGAAAACTTATGATTCCGAGAATAGCTAGAGTATGCAAG
Seq A exon
GTGGGACATGGCTCAATTGCTTTTTATTAATTACAGTAGATTCTGTTTTTAGTGAAAAAAAATCACATTTATTATAAATTAAATGGAAATGGTTTAACTTCATCTCACTGAAACTGCAGTTCTAACCAGTTTCTCGTAACTGACAAAGTCCCATTGTTGCTTTGAAAACTAATACTTGACTTAATTTAATTAATGGTGAAATTTCAGTACGTATGAGAGTTCTGTCCTCCCCTGGGGGGTGTCAGAGAACAACAATGACCAAAAAAAGGGCTCTTGTTTCTGTTTTATTTTTTAAACTGAAAGTTTAATTATAGTCCCCAGGGTGGGGGGAAGGCTTGAGTTTCTGTTGAGCAGATAGGAAGTTTGTCAAAGATACAAGTTATTCTCAGGTGGCAGCATGCAAGCAAGATCATTTTCTCCTGTGTCACAGCTAGTTAAAGCAGGTGGGACTTCTGTGGAGCTGCCAGAGCCACGAACAAGACAGTCACCAGCAGTCTGATTCTGCCACACTTAGTGTGATTAAACCTTAATTATTTTGGTTCAATCAAGTAGTGTTGGTTAAAAATCTTGCTAATGGAAGAAGATATTTTTCCAGTACAGAATACTCTTTTCATTGGAATGTTATCAATTTCCTCGGTCCTTTTTTTTTTCCAACAGGAAACTTTCCTAGCTATTTCATTTTGATTAAGTTGAAATGTTTTATTTTGACTTTACTGTTCTATATTTAAATGTGGAAGTCAAAATATCAATAACAAGTTAGTGCCCTTGAAATTTCCATTAAACAAGCAGCTAGAGGCAGGTTTACGCAGGACTTAATATTATGGACCTCTGCCCACCGACAGCTTGTGTGCTCTTCAGAACAGGAGTATCACAGAACATGAGAGATACATTGCTGCTGCTTGTTAGTAAAAGGAATCAATGGCAGATTGCAGTTCTAAAGGGATTTTTACTTAAGTTTTACTTAGATATACTTAAACTTCCAGTTTTTCTTCAATTGTTTGCGTAAAAGCACTGGATAATGAAAAAAAAACTATTAATAGTGCCCAAATATGCCTGGTTTTGTAAAGAAATAACAGAGCTGCAACTCGAAACATTTCTAGTCTATTCAAATATATCTTTCAGTACTACAGATCCTTCAAGAAGGTGGTAACTGCACACAGGATTAGAATCATAGAATCACTCAGGTTGGAAAAGACCTTAAAGATCACTGAGTCCAACCATGACCTAACCATACTACCCTAACTAACAACCCTCTGCTAAATCGTGTCCCTGAGCACCACATCCACACATTTTCCAAACACATCCAGGGATGGTGCCTCAACTACCTCCTTGGGGAGCCTATTTCAGTGCTTAACAACCCTTTATGTAAAGAAGTGTTTCCTAATATCCAGCCTAAACTTACCCTGGTGCAACTTGAGGTCATTTCCCCTCATCCTGACACCTGTCACCACTGAGAAGAGACCAACCCCGCTCTCACTGTAAGCACCTTTCAGGTATTGGAAGAGAGCAATAAGGTCTCCCCTCAGCCTCCCTTTCCACAGACTAAACAGCCTCAGTTCCTTCAGTCTCTTCTCATTAGGCATATTCTCCAAGCCCTTCACCAGCCTTGTTGCCCTTCTTTGGGCCTGCTCCAGGACCTCCATGTCCTTTCTGTACTGAGGTGCCCAAAGATGAGCACAGTACTTGAGGGGGGGCCTCACCAGTGCCAAGTACAGGGGCAGGTTTACTTCCCTAGTCCTGCTCACCACACCATTCCTCACATAAGCCTGGATGCCATTGGCCTTCTTGGCCACCTGGGCACACTGCTGACTCATATTCAGCAGACTGCACATCAGTACACCAAGGTCCCTTTCCATCAGGCAGCTTTCCAGCTGCTCCTCCCCAAGCCTGTAGGGTTGCCTGGGGTTGTTGTGACCAAAATGCAGGACCCAACACTTGGCTCTACTGAAACTCATGCAGTTAACCTTGCCCCATCAATCCAGTCTATCCAGGTCCCTCTGTAGTACCTTTCTCCCCTCAGGCTGATCAACACTCCTTCCCACCTGGATGTCCTCTGCAAACTTACTGAAGGTGCACTCAATCCCCCTGTCAAGATCGTTAATAAAGATGTACCAAGTACCTAGCCCTGGGGAACACCACTCATGACTGGCCATCAACTGGATTTAACTCCACTGACCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGGTGGATTCCCTCTGGGACTGTTCCCTGTCAGCTGTATTATAATTCCAGCAGATGCCTTTGAAGTTGAATTCCCCCACAAGAACAAGGGGGAGTGATCTTGAGACCTCACCGAACTGTCTATAAAGTGTCTTGTCCACCTCTTCATCCTGGTAACTGGTAATTAGGTCACTGGTGCTTTTTTTTCCTAGTAGAATTGTTACTGTCAGGCGTGTTAAGTGCATATTGCAAGATTACAGTATAAATCATTTCTGTTTGGATGTCAAAGAACAAATGCAGTGTTACTGATTTGTGTTAAAGGATGTGTATAATACCTCCAAGTTTATTTTAATTGTTCTAGTATGCATTTGTGTTTTATAAAGGTATGTCAGTCATCTCTGTTTTTCAAATGCTAAAGTACAGTTCTTTTAGAAGTCCAATGTCTCATTTCCAGATGTTGACAGAAACCATTCTGCATTATTTCTGTTGACTCCAATAAGTAAATAAATAAATTCTATGGCTTCCTTGCTTTTCTGTACATGAACATATTAACAGTTTTTGATGTTGCTGTAGATGAAATATTAAAGAAGTATGCTAGTTAGAAAAGTTTGAAAACAGAAAATAGAAGAAAAAAAATAGTTCAGTAGCTTTGTAGCTGTAGTTCCTAAATGCAAAACTTCTGCCTAATTATCTTCATAGACACTTCTCTTTTTTTTCCCCATGCCAAAAG
Seq C2 exon
AGGGACCAAGGAGGATTAAGGACTTTGCAGAAAAAATGGACTTCTTTTCTCAAGGCCAGATTGATATGCACCATTCCTGATAAGAATTTAATTTTCAATATTATCAATGATGTTTTTATTCTGAAGTCTCCAACCTTGAAGGAACCAGTGATATATGGAGTCTTTACCCCACAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010697:ENSGALT00000017396:7
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=PU(11.8=96.8)
A:
NA
C2:
PF0140314=Sema=FE(13.4=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]