HsaINT0147369 @ hg19
Intron Retention
Gene
ENSG00000187764 | SEMA4D
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D [Source:HGNC Symbol;Acc:10732]
Coordinates
chr9:91991748-91996013:-
Coord C1 exon
chr9:91995970-91996013
Coord A exon
chr9:91991967-91995969
Coord C2 exon
chr9:91991748-91991966
Length
4003 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
CTGTCCTCTCTGTCTCACAGCCT
3' ss Score
10.41
Exon sequences
Seq C1 exon
GGGTTTGATTCAGGAGATGAGCGGCGATGCTTCTGTGTGCCCGG
Seq A exon
GTGAGTGACTCCTCGACGTCCCATTTCCTTTGGGAGTGGCGAGGTCTTGTAGCCATTTCACGGTGCTTCAGTTCTGTGGCATTTGTGTGTGTTTTGTTTTTCTTTCTCCACTCGGAACAGAGGTCAAGTGTTCTGTAGCAGACTCGTGGTCTTCTCTGTCTTTTTTTCTTGCCGAAAGAGTACTTGAAGCCACTTAGAGTGTATCTGCTTACTGGGAAGCAGTCTCCTTCCAAAACCATCCTGTTTTCTTTCTGCTTAGCTTGGGGCTCATTAAGCAAAACCTAAGCCTGTTATAAATGGGGAGAAAGGAGCCCATGAGTGATTAATCCTCAGGCAGTGTAAGGGCTGGGGTGGTGTTTCCCCTGGGGCTCCCACCTGGGATTCACCCGCCTGTGGATGTCTGAAATAGCACCACACCCAGAGGGAGGGGTGGCATCAGGCCAGATGCCCCTTCCCCAGCAGCCACCTTCCAGGGTGCTAAAGGCAGACTTGACCCTCAGTTCTGTGTCTTCCTGACCCTGACAAGACAGCTGTCATCAGACTAAGAAAGGTTTAGGCAGCTGGGCATGGTGGTACACGCCTGTAGTCCCAGCTACTAGGGAGGCTGAGGCAGGAGGATTGCTTGTGCCCAGGGGTTCAAGGCTCAGTGAGCTTATCATGCCACTGCACTCCAGCCTGGGGTGACAAAGTGAGACCCAGACTCTAAAAAGAAAACAAAAGCTGGCCGGGCACAGTGGCTCATGCCTGTAATCCCAGCATTTTGGGAGTCTGAGGCAAGAGGATCACTTGAGCTCAGGAGTTCGAGACTACCCTGGGCAACGTGGTGAGACCCTGTCTCTACAAAAAATACAAAAATTAGCCAGGCCTGGAGGTGGTCACCTGTAGTCCCAGCTACTCTGGAGACTGAGGTGGGAAGATCCCTTGAGCTGGGGGGGTTGAAGCTGCAGTGAGCTGTGATTGCACCACTGCACTCCAGCCTGGGCAACAGAGCCAGACCCTGTTTCAAAAAAAAGAAAAAAAAGAAAAGTTTAGGCAGGAGGAGAGTGCTGAGATGCACTGAAAGGCCAGTCTTCCTTGCAGCCATTAGCAGAAGCGTCTCGTGTCTGATTCAAAGAGCTGACACTAGGCACAGAACTGGCCTCTGCTCAGCTTCCCCAGCCTGACGCGTTTTCTTCTGGGACACGGGTGAGAAATGGGATTTCTGCTGCTCAGAGCTGCCTCCAATTTCTTTGTCCCCATGGGCTGTCATCCAGGGCTCATCTTTGCTTTTTGGTCACGCATGTCTTTATCTCCTTAGTTGTTCTGGAAGATTCCATGTTGCTACAGTGGGTGAAACTCTTGCGTCATCTTGTGGGTATTTTAAAGAAGTTGTTAAATAGCAAATGGGGATTGTTGACGCTGTGCACGTTTATTTTGATGTTCCAGATAAAAGTAAAGGAAGTTACCGGCAGCATTTTTTCAAGCACGGTGGCACAGCGGAACTGAAATGCTCCCAAAAATCCAACCTGGCCCGGGTCTTTTGGAAGTTCCAGAATGGCGTGTTGAAGGCCGAGAGCCCCAAGTACGGTCTTATGGGCAGAAAAAACTTGCTCATCTTCAACTTGTCAGAAGGAGACAGTGGGGTGTACCAGTGCCTGTCAGAGGAGAGGGTTAAGAACAAAACGGTCTTCCAAGTGGTCGCCAAGCACGTCCTGGAAGTGAAGGTGGTTCCAAAGCCCGTAGTGGCCCCCACCTTGTCAGTTGTTCAGACAGAAGGTAGTAGGATTGCCACCAAAGTGTTGGTGGCATCCACCCAAGGGTCTTCTCCCCCAACCCCAGCCGTGCAGGCCACCTCCTCCGGGGCCATCACCCTTCCTCCCAAGCCTGCGCCCACCGGCACATCCTGCGAACCAAAGATCGTCATCAACACGGTCCCCCAGCTCCACTCGGAGAAAACCATGTATCTTAAGTCCAGCGACAACCGCCTCCTCATGTCCCTCTTCCTCTTCTTCTTTGTTCTCTTCCTCTGCCTCTTTTTCTACAACTGCTATAAGGGATACCTGCCCAGACAGTGCTTGAAATTCCGCTCGGCCCTACTAATTGGGAAGAAGAAGCCCAAGTCAGATTTCTGTGACCGTGAGCAGAGCCTGAAGGAGACGTTAGTAGAGCCAGGGAGCTTCTCCCAGCAGAATGGGGAGCACCCCAAGCCAGCCCTGGACACCGGCTATGAGACCGAGCAAGACACCATCACCAGCAAAGTCCCCACGGATAGGGAGGACTCACAGAGGATCGACGACCTTTCTGCCAGGGACAAGCCCTTTGACGTCAAGTGTGAGCTGAAGTTCGCTGACTCAGACGCAGATGGAGACTGAGGCCGGCTGTGCATCCCCGCTGGTGCCTCGGCTGCGACGTGTCCAGGCGTGGAGAGTTTTGTGTTTCTCCTGTTCAGTATCCGAGTCTCGTGCAGTGCTGCGTAGGTTAGCCCGCATCGTGCAGACAACCTCAGTCCTCTTGTCTATTTTCTCTTGGGTTGAGCCTGTGACTTGGTTTCTCTTTGTCCTTTTGGAAAAATGACAAGCATTGCATCCCAGTCTTGTGTTCCGAAGTCAGTCGGAGTACTTGAAGAAGGCCCACGGGCGGCACGGAGTTCCTGAGCCCTTTCTGTAGTGGGGGAAAGGTGGCTGGACCTCTGTTGGCTGAGAAGAGCATCCCTTCAGCTTCCCCTCCCCGTAGCAGCCACTAAAAGATTATTTAATTCCAGATTGGAAATGACATTTTAGTTTATCAGATTGGTAACTTATCGCCTGTTGTCCAGATTGGCACGAACCTTTTCTTCCACTTAATTATTTTTTTAGGATTTTGCTTTGATTGTGTTTATGTCATGGGTCATTTTTTTTTAGTTACAGAAGCAGTTGTGTTAATATTTAGAAGAAGATGTATATCTTCCAGATTTTGTTATATATTTGGCATAAAATACGGCTTACGTTGCTTAAGATTCTCAGGGATAAACTTCCTTTTGCTAAATGCATTCTTTCTGCTTTTAGAAATGTAGACATAAACACTCCCCGGAGCCCACTCACCTTTTTTCTTTTTCTTTTTTTTTTTTTAACTTTATTCCTTGAGGGAAGCATTGTTTTTGGAGAGATTTTCTTTCTGTACTTCGTTTTACTTTTCTTTTTTTTTAACTTTTACTCTCTCGAAGAAGAGGACCTTCCCACATCCACGAGGTGGGTTTTGAGCAAGGGAAGGTAGCCTGGATGAGCTGAGTGGAGCCAGGCTGGCCCAGAGCTGAGATGGGAGTGCGGTACAATCTGGAGCCCACAGCTGTCGGTCAGAACCTCCTGTGAGACAGATGGAACCTTCACAAGGGCGCCTTTGGTTCTCTGAACATCTCCTTTCTCTTCTTGCTTCAATTGCTTACCCACTGCCTGCCCAGACTTTCTATCCAGCCTCACTGAGCTGCCCACTACTGGAAGGGAACTGGGCCTCGGTGGCCGGGGCCGCGAGCTGTGACCACAGCACCCTCAAGCATACGGCGCTGTTCCTGCCACTGTCCTGAAGATGTGAATGGGTGGTACGATTTCAACACTGGTTAATTTCACACTCCATCTCCCCGCTTTGTAAATACCCATCGGGAAGAGACTTTTTTTCCATGGTGAAGAGCAATAAACTCTGGATGTTTGTGCGCGTGTGTGGACAGTCTTATCTTCCAGCATGATAGGATTTGACCATTTTGGTGTAAACATTTGTGTTTTATAAGATTTACCTTGTTTTTATTTTTCTACTTTGAATTGTATACATTTGGAAAGTACCCAAATAAATGAGAAGCTTCTATCCTTGATTTGGGGAAGACATTCCTTAGCGGAGGCTGTGCAGCCTCCCGCCCCTGCATGGCCCAGGCGGGACAGCTGGGCTCGCTCTTTTCTGTCCGTTTCCTGCTGTGTTTTGCCCTCTCTGGCCTGTGACGTGCTCCTGGCGACTTCTTCCTCAGTGCCCTCTCTTTTCTGTCCTCTCTGTCTCACAG
Seq C2 exon
CCTCGTCTCCTAAGCCCCTCCCTCCTCCTGGCTCCTCTTCCCTGTCCTGTCTGGGCCATGTGGGGGACAGGAGGCTTTCCTCTCCCTGGACCCCCTGGCCAGCCTCGGGTGCGGGGCCCGACAGCAGCTCGAGGGTCTCCTTGCTGCCGCCCTTCCTGAGTGACCAGGCACAGCACGTGCACGCCCTGGGGAACTTCTACCTCTTCTGCCAGGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187764-SEMA4D:NM_001142287:17
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.097 A=NA C2=0.284
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(26.4=87.5)
A:
NA
C2:
PF138951=Ig_2=PU(26.4=32.4)
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]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)