GgaINT0067167 @ galGal3
Intron Retention
Gene
ENSGALG00000010697 | SEMA4D
Description
NA
Coordinates
chrZ:42885436-42885869:-
Coord C1 exon
chrZ:42885694-42885869
Coord A exon
chrZ:42885593-42885693
Coord C2 exon
chrZ:42885436-42885592
Length
101 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
TTTTTTTTTTATGTTTTTAGGAA
3' ss Score
11.55
Exon sequences
Seq C1 exon
AGGGACCAAGGAGGATTAAGGACTTTGCAGAAAAAATGGACTTCTTTTCTCAAGGCCAGATTGATATGCACCATTCCTGATAAGAATTTAATTTTCAATATTATCAATGATGTTTTTATTCTGAAGTCTCCAACCTTGAAGGAACCAGTGATATATGGAGTCTTTACCCCACAGCT
Seq A exon
GTAAGTCTGCTATTACAGTGTTTCCCTGAATGAGTACTTTTGATCTCAGCTGGTTGCTAAATCAAGTAATTACTCCTGTGATTTTTTTTTTATGTTTTTAG
Seq C2 exon
GAATAATGTGGGTCTGTCAGCTGTGTGTGCCTACAATTTGTCTGCTGTAGAAGAAGTTTTCTCAAAAGGAAAGTATATGCAGAGTGCCACAGTAGAACAGTCCCATACTAAGTGGGTACGGTACAATGGGGAGATTCCTAACCCTCGACCTGGTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010697:ENSGALT00000017396:8
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=0.019
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(13.4=100)
A:
NA
C2:
PF0140314=Sema=FE(12.0=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:
AGGCCAGATTGATATGCACCA
R:
TCTCCCCATTGTACCGTACCC
Band lengths:
258-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]