HsaINT0147334 @ hg19
Intron Retention
Gene
ENSG00000185033 | SEMA4B
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B [Source:HGNC Symbol;Acc:10730]
Coordinates
chr15:90767070-90768410:+
Coord C1 exon
chr15:90767070-90767220
Coord A exon
chr15:90767221-90768199
Coord C2 exon
chr15:90768200-90768410
Length
979 bp
Sequences
Splice sites
5' ss Seq
GCGGTGGGT
5' ss Score
6.6
3' ss Seq
ACTGCTGCTTTCTCCTCCAGTGC
3' ss Score
10.56
Exon sequences
Seq C1 exon
GCACAGGGGAACTACAGAAGGCTCTGCCGTCTGTGTCTTCACAATGAAGGATGTGCAGAGAGTCTTCAGCGGCCTCTACAAGGAGGTGAACCGTGAGACACAGCAGTGGTACACCGTGACCCACCCGGTGCCCACACCCCGGCCTGGAGCG
Seq A exon
GTGGGTACTGGCTCCCTGCACCCAGAAGGGGTGCCGGGAAGATGTGGGTCCCCACACCATGCTGGGAGCAAGGCTGCCTAGCCTCGGGCAGATCACTTGGCTTCTCTGAATCTCTTTTCTCATCTTTAATATGGGGATATAGGCCCAGGCCTGCTTGTGTACTGGGTTAGATATAAGTATGAATGTCAGAATATCTTCAGTTCTGTTTCAGGATACAAGTGTGTCCCCATCAGGGCACTTGCTGCAGGCTGTTACAATCATCTCTTCATTTGGTCCTCTCCCCTACTCAGCTGCAAGCTCCTTATTTAATTATCAAGTGACTGAATGGGCAAGCTGTGGGGAAATAATCCTTTCTTCCTCCCTTCTAGCCTAACGGGCTACCCTGATAGCAGACCTTGAGACAAGGATATACGTGCCAAATAGTTTATTAGGGAGGTGATGCCAGGAAGCAGCATGAAGGAATAGGAAGGTTGAGAGGAGGAGGGAGGGAAACCAAAAGAGGGTGTGTCAGCACGCTGTTGTTGCTGTGGGCAGCTGGAGCTGGGTCCTGCTGGAGCCCCTGACAGATGGTGTGGAGCACCTCTCAGAATTTCAGGAAGCCTCAGGCGGGGCAGGAAAGAACTGCCGACTGCACTGGGACGCTCTGCCCGGCCAGGGCTTCCTGAGAGCACTGGTGAAGGGTGCAGAGGAGCAGGGAGTGTGGTCCTGGTTCTTGAGGCCCCTGGGCATATGAGGCTGGGGTGGTGGGCAGGGAGGAGGCACAGCAAGGAAGCCCTCCAAGCACTCGGTTTCCCCGCACCCTGGGCTTTGTCCTTGCTCCCTCAGATGTGCACACTGGCTCTGTAGAGCACTGCCAGGGATGTGCCCTGGCTCCGGGCGGGGGGACAGACACCGCTACTGTCCACTGGGGAAGCAGGGCCCGCATCCTGCCTGCCACCCCGAGGTGTGGCTGGCCTCACACTGCTGCTTTCTCCTCCAG
Seq C2 exon
TGCATCACCAACAGTGCCCGGGAAAGGAAGATCAACTCATCCCTGCAGCTCCCAGACCGCGTGCTGAACTTCCTCAAGGACCACTTCCTGATGGACGGGCAGGTCCGAAGCCGCATGCTGCTGCTGCAGCCCCAGGCTCGCTACCAGCGCGTGGCTGTACACCGCGTCCCTGGCCTGCACCACACCTACGATGTCCTCTTCCTGGGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000185033-SEMA4B:NM_020210:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.157 A=NA C2=0.056
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(11.4=100)
A:
NA
C2:
PF0140314=Sema=FE(16.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGGGGAACTACAGAAGGCT
R:
GACATCGTAGGTGTGGTGCAG
Band lengths:
344-1323
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
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)