HsaINT0147373 @ hg38
Intron Retention
Gene
ENSG00000187764 | SEMA4D
Description
semaphorin 4D [Source:HGNC Symbol;Acc:HGNC:10732]
Coordinates
chr9:89361609-89363527:-
Coord C1 exon
chr9:89363430-89363527
Coord A exon
chr9:89362429-89363429
Coord C2 exon
chr9:89361609-89362428
Length
1001 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
AGACCACATTGTTCTTTCAGGAA
3' ss Score
8.32
Exon sequences
Seq C1 exon
AAGTGACCCACCAGGAGAGGTGGACCAGAGAGCTCTCTGCCTGGAGGGCTGTGGCTGGGGAGCACGACCGGATGATGCAGAGCTGGAGGAAGGCGTGG
Seq A exon
GTAAGTGGCCGCAGCCGGGCAAAGAAAGGAGGGCTGGAGCCAGGGGCAGGGCACCTGCCACATCCAGTGGATCTTTCAAGGGCCCCATTCAGCATGGACCCCACTTGTTCCCTCTTAGCCCCGGAGCAGTTTCCTTTATGAAATCTGCAACACTGGGGGGGGAAATCCCACGTCTTGTTGCTGAGACTGCAGGAGATCAAGGGGCATCTGGCCCCAGCCCTTAAAAGAGACTGAAGGGAGGCGAGACTGGGAGGGACTCACAGGTGGGGCTGTCTAGTTAGATGGGCCCCCACGACCACCCCATTCTCTGTACAGAGCACTCAGCCAGCCACTCCTTTGAGGAGGGCAGGAAACCTGGACAGATGGGGAACCCTCCAGGTAGCTCCTGGCTGGATGCCTCACCTGAGGCACCTGTTGGAGGGGTCAGGGGGAGTGGCTTCCTGAGCTAAGCCCTGGCAGGAACTGGGCTACAGCATGGAAGCTGCAGGCAGTGGGGCAGAGGCTCCCTAGAGGCTCCCTGTCTCCCCACGGAGACAAAGTTGTCCAGCCCCGGCTCCTAAATAGCCGATACAGAAGGCAAAGGCAGGGATTCATCACTGTGTGCTACCACCTGCGGTGGGGTCTGCAGCACTCAAATGAGTGCATTAAAGTGTGTGGGTTACGTGGCTGCCAGCAGTACACCCCCGAACTGTTGCCACCAAAGGCTGGGCATTTACAGCTGATCCTCTGTACTTCAGCACACACAGGCTCCCTCTCTCCAGCCCTCCTGCCTCTCAGCACAATCTGGGAGTGGAGTGAATGCGCTGCTGCTCTGCCTTCCTGTCACATATGGGAGAACCACTCCTGGCATTTGGATCTTTAGACTCCAAGGAGGGGAACCACAACAGGGGGCTGAGGCCTTGAGTGCTCTGCCTGGGATGGGCTATGAGACAGACTGGGCTGCAGAGCAGGAAAGGCCCATCCGTTCCACCAAGGATTCAAAGACCACATTGTTCTTTCAG
Seq C2 exon
GAAAGCTGTAGCAAGGACACCCTGTAGCCACCAGGAAGGAGTCCCTGACACCGACCTCAACCCCAACAAGACCCTGCTGCCACTGACCACAGCCACCCCCGGAGAAGGCCTGGTCCCCCACAACTGTGAACTGTCTTGCCCAAGCCTGCTCTGAACACAGCCATTGGGCCACCACCTGATGGGCAGAGGCGGGACAGTGGAGAAGCCTGGAACCCAAGTGGGCCTGTGACAGGAACTAAGACTTAAAAAATTAGGTGCTTACCTGGGACAGTAAGTTCTGTCTGGCACAAGCAGGTAACCAGGATGGCTAACAGGCTTTGATAGCTGCTCGTGAACTAAAACAGCAGGGTGTGTGCAGGTTCCTCCTCTACGGTCAGGCAGCAGGCTCTGAAGGCTGATCCTACACCGTCCCAGTGACTCCCCTTGACAGAGTGCCCCCACCCCCTAATAGCCAACAGGGTTAGCATGGCCAGCACAGATCGCTGCTTTTATTGATGCAAATCAAGCCTGCTGCTTCTCCTCCCTGCAGACTTAGCCAAGGAACTCCAAGATGCATGACTGGGACAAGAAAAGGTGAGACTCCACATGGAAATGCCTTGCCCTAAACCTTGAATGACTGTGAGATGCGATCTGGGAGTGCATCTGTCAAGTCTTTGTGTTTTCTTCACTAACCTCAGAATACTGGGCTCTATTTTATCAAGCGCTGCAGTTTATGCCTCTGTCCCGTCAATGCTCAGCTTCTGCAACAGGACACCAAACTTGATGCAGAAAGCCAAATAGGTCAATTATGCAAATCTCCTGGTGCCATATTAAATTTCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187764:ENST00000455551:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.004 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATGATGCAGAGCTGGAGGA
R:
AGCCTGTTAGCCATCCTGGTT
Band lengths:
346-1347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development