HsaINT0147365 @ hg38
Intron Retention
Gene
ENSG00000187764 | SEMA4D
Description
semaphorin 4D [Source:HGNC Symbol;Acc:HGNC:10732]
Coordinates
chr9:89387386-89388792:-
Coord C1 exon
chr9:89388636-89388792
Coord A exon
chr9:89387609-89388635
Coord C2 exon
chr9:89387386-89387608
Length
1027 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
CGGGGATTTTCTCCCTGCAGTGC
3' ss Score
7.93
Exon sequences
Seq C1 exon
GAACAACGTGGGGCTGTCGGCAGTGTGCGCCTACAACCTGTCCACAGCCGAGGAGGTCTTCTCCCACGGGAAGTACATGCAGAGCACCACAGTGGAGCAGTCCCACACCAAGTGGGTGCGCTATAATGGCCCGGTACCCAAGCCGCGGCCTGGAGCG
Seq A exon
GTGAGCTGGGGCACTGGGGGCGGGCCGTGCTTTCCCTTCAAGGCCCAGGGCATGGAATCCAGTACAGGCACTGGGGCCTGCTCATGGGCTGGGTACCTGGCCACGCCAAGGCTCTCTGCATTGGGACAGGGACGGCCGATGAGCACAGCTCATCCTTCTTCCCTTTTGCATGTTACGTAACAGCCATTGCTACACTATTGCACAAACAAGAAGGCTGGGGCAGCTGTTTTGCACAATTAACATTGCATAACAATTAGGTCTGTTTCATTTTCAGTTTCTTACAGAGAAACACATGATTCCTTGGCAAAGGCCTCTGCACTGTCCACTAGTCAACAGGAGTCACATTTTTTCCTCCTAAATATAGTGAACTTTATGTAGAAATTGGGAATTTCCAGGCCGATTCCTTCCCTCACATGGGGAAATGGGTGTGACAGGCATGTGCACAGCCCTCTGTGGGGCTGTGACCTACATGGGGTGTCCTGGCCCTCAGAGTTCACTGCAGCACCAGCTCCCTCCCAAGGGCAGCTGTCCCTGACACCATCATGGCTCCTTCTATGCATAGCTTCGTAAAATGTGTTCACTCATGGTCACAGATTTTGGTTTACACACATCAGGGAGCTAGAACAGGAAAAAAGAATCCCTCAGGCTCTTATGCTATTTTAAATTGTCCTGGTTTTAGCCATGTTTAGCATTCTTTTCATGAGAAAGCTGCAAATCAGTGTTCTGTTTTTTAATTTCAAAAGCTCAATAAGTGTTTTTCACTTACAAATAGATAAAAATTCCTTCCCTGAGTATGTATCGTGAATGCAATTCTGTCTTGCAGATGTGTTTTATAACTGTGTCCTCTGCTGGCTGGGGAGAGGCCACCTTTCCTCATAGTAAAGTTATTCACTGCTACCCTCATTTCAAGGCATGCATTGTGTGGTTTCCAGGTTTTGCAGCCCCCCCTGCGTTGGCTGCTTGTGTGGAAGCACCCGTTGCGTGGTGGGACACGAGCACGTTAACAGCGGGGATTTTCTCCCTGCAG
Seq C2 exon
TGCATCGACAGCGAGGCACGGGCCGCCAACTACACCAGCTCCTTGAATTTGCCAGACAAGACGCTGCAGTTCGTTAAAGACCACCCTTTGATGGATGACTCGGTAACCCCAATAGACAACAGGCCCAGGTTAATCAAGAAAGATGTGAACTACACCCAGATCGTGGTGGACCGGACCCAGGCCCTGGATGGGACTGTCTATGATGTCATGTTTGTCAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187764:ENST00000455551:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.132 A=NA C2=0.013
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(12.0=100)
A:
NA
C2:
PF0140314=Sema=FE(17.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACAACCTGTCCACAGCCGAG
R:
TGTGCTGACAAACATGACATCA
Band lengths:
348-1375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development