GgaINT1024733 @ galGal4
Intron Retention
Gene
ENSGALG00000010697 | SEMA4D
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D [Source:HGNC Symbol;Acc:HGNC:10732]
Coordinates
chrZ:43460366-43461836:-
Coord C1 exon
chrZ:43461793-43461836
Coord A exon
chrZ:43460693-43461792
Coord C2 exon
chrZ:43460366-43460692
Length
1100 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TATTTATTTTGGTGTTCCAGATA
3' ss Score
8.28
Exon sequences
Seq C1 exon
GAATTGGATTCAGAACATAGGTGGAGATGCATCTTCTTGTTCTG
Seq A exon
GTGAGTTACGTTCTGTGAAGAGCTACTTAACTTATTTAGGTGGAATAGGAAAGACTTGTGTTTGTGATTATCTAGATTTTCATTTATATTTTAATATGTATGAAGTTCTGTTTTTTTTTCATACTTGAGCATCTGTACAGCCTTCATCTTGTCTTGAAATGCTTGTATTTGTGTACATTTCAGTGAGCAGTGCACAAACTTCTGAAATGAATGGGAGTACCTCAACAGCATGTCGTGAATGAAAGTACTATTTACCAAGAGTACCTCTAGTACAGAGGTCTCTGTCTCTGATAAAATAACATTTGACATTCTACTGTGAGTCTTGATTAAGTGCTTGACTGTTGTTGCTAGATCGGATGAAATGGTTCTGAAAAATGCTGCTTTTATTATGAGAGGGGAGGGGTGCTCAATACATCATAGAGAGCAGCTGAAGTACCCTCCAGTGTACTTTAAGACAAGTAACTGCTGGTCCTTTCTTTCTTGTACATGTTGCTGCCATCAGATTATGGAGATCTTAAAGACTAGTGTTAGAGAAGATTTGTACTGCAGTAAATAGTACACTGCTTTATTCTTTTTTCATTTCTTATCTAAGCACAACGAGGGCCACCAGGAGAGTTTGACTTGTTAGTTATATCGCTCATTTATCATATTGTGTTTTGGGTGTGCAATGGGTACTGATGTTTTCAGAAGAGAGTTTAATTTGAGTACTGGTATTTGCATTTCTTAAAATTAAATTTCTTCTTGAACATTCTGTCATTACTTAAAATATACTAATTGGTTTGAAAGTAATACAAAGTTGAGCATCTTGTTTCAAATGATGACTTAGAGGCACACTCAATTTGGATCAACTAAGTCTCCCCCTACTTTTCTGGAAGTGGAAGCTGTTTTGGAGTTTGAGGTGTCTGATTTTGTAATCTGTTTTGATGTCCTGTATACATCTGTAGTTTAGTATTTCATGGAGACTTGCATGCTGTTATCTTGGTCTTGAGATAATCTTAACACCATAGTCTTTGCATTTCCATTATGACTCTTGAAACTGTGCAGATTAGATCAAACAGGAATCACTGCTGATACTTTGCATATTTATTTTGGTGTTCCAG
Seq C2 exon
ATAAAGTAAGAGAGAATTCGCTACAGCATACGTTCAAGCATGGGAGCACAGCAGAGCTCAAGTGTTCTCAGAAGTCCAATCTGGCACAGGTAGTTTGGAAGTTCAGAGATGACGTACTGAGAGTGGAGAGTCCCAAATACCGGCTACTGGAAAAGGCGCTACTCATCTTCAATTTATCAGAAGGAGACAGTGGTGTTTACCAGTGCCTGTCAGAAGAAAAAGTGAAGAATAAGAAATTCTCTCAGGTGTTGGCTAAGCATGTTTTGGAACTGAAGAAAGTCCAGCATACTACGGCAAGCCCATTGGTGGCAGCTGCATCAACAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010697:ENSGALT00000037939:13
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=0.009
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(22.7=100)
A:
NA
C2:
PF0143720=PSI=PD(18.2=10.9),PF138951=Ig_2=WD(100=72.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTGGAGATGCATCTTCTTGT
R:
CTTCTGTTGATGCAGCTGCCA
Band lengths:
353-1453
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]