HsaINT0147345 @ 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
chr15:90764846-90766972:+
Coord C1 exon
chr15:90764846-90764997
Coord A exon
chr15:90764998-90766790
Coord C2 exon
chr15:90766791-90766972
Length
1793 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CCATCCGACTCTCCCTCCAGGGC
3' ss Score
11.16
Exon sequences
Seq C1 exon
ACCCAGCTTTTGTGGCCTCAGCCTACATTCCTGAGAGCCTGGGCAGCTTGCAAGGCGATGATGACAAGATCTACTTTTTCTTCAGCGAGACTGGCCAGGAATTTGAGTTCTTTGAGAACACCATTGTGTCCCGCATTGCCCGCATCTGCAAG
Seq A exon
GTGAGGGGAACGGGCTGACAGGGTGGCCACCCCAGGGACCTCAAAGCCTCCACAGCTGCAAGATCACCCACATCCATGCATGGCCTTTCCCATCCCGCCAAGGAGTACAGCTTGGCTAACAGCTTTTCTCTCTCACCTTTTAAATTAAAATATCTTACTACTTTTTTCTTTTTTTTTTTTCTTTTTATTTTTAGACAGGATCTTTGCTCTGTCACCCAGGCTGGAGTGCAGTGGCACGATCACGGTTCACTGCAGCCTCGACCTCCTGGGCTCAAGCAGTTCTCCTACCTCAGCCTCCCGAGTAGCTGAGACTACAGGTGTGCGCCCCCATGCCCAGCTAATTTTTGTATTTTTTGTAGAGATGGGGTTTTACCACGTTGCCTGGGCTGGTCTCAAACTCCTGGGCTCAAACAATCCACCCACCTCGGCTTCCCAAAGTGCTGGGATTACAGGCATGAGCCACTGCACCCAGCCATTTTTTTTCTTTTCTTTTTTTTTTTTTTACTTAAAAAATGTGAAAATAGCCGGGCATGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTGGGTGGATCACCTGAGGTCAGGAGTTTGAGACCAACCTGGCCAACATGGTAAAACCCCATCTCTACTAATAATACAAAAGTTAGCTGGGCGTGGTGGTGCACGCCTGTAATCCTAGCTACTCAGGAGGCTGTGGCAAGAGAATCGCTTGAACCTGGGAGGTGGAGGTTGCAGTGAGCCGAGATGGTGCCACTGCACTCCAGCCTGGGTGACAGAGCAAGACTGTCTCAAAAAAAAAAATGTGAAAATAGAAAACTGTACACACAAAAATCACTTACAAGTTAAAGAGGCACTGTAGCATCAGCTGGAGAGCACAGACCCTGGAGGCCAACTGCCCAAGTTCAAACCCTGCTGGCCTAGGATCTTGGGCAAGTCCCTCACCCCCTCGGTTAACAGTTTCCTCTTCTGTTAAATAGGAAGAATAACACTGACCTCAGAGTTGTTATGTGAATTATTAATCCACGCAAAGCTCTTAGAAATGTGGTGGGCAGTGACTAAATGTGAACTATGAATGTTATTACCCCACCACCCCAGCACAAGAAGGAGTCACTGGTATCATTTTAGAATGCCCCCTCCAAATCTTTTTTTTTTTTTTTGGCATATGTGTAACTCTGTGTATATATATATATACATTTTTTTTTTTCCTTTTTGAGACAGGGTCTCACTTTGTCATCCAGGCTGGTGTGCAGCGGTGAGATTTCACTGCAACCTCCGCTGCCCAATCTCAAGCAATCCTCTCACCTCAGCCCCTCATGTAGCTGGGACTACCAGCATGCACCACCATGCCCAGCTAATTTTTTTGTATTTTTAGCAGAGACAGGGTCTCAAACTCCTGAGCTCAAGTGATCCACCCGCCTTGGCCTCCCAAAGTGCTGGAATTATAGGCATTAATAATATAAGTACCATCCCGACCTTGTACTTATATTATTAACTCACTCAGGAACATGGCATTAGGCTATATTGGGGTCCTTTGGCTTCCTTGTTTGCTCAGCAGTGAATCGCGTCCATATTTAGGAAGGCTCTGCTTAGTTACAGTAAGGACCATCCTCCTGATGGATGCGTACACTGCTCTTCCTGACTTTAGATGGAACTTGGTCCTGGCCTTCTCCTGCCCTTCAGTCCTGGTGTCTGGGGTGGGTCCATTGAGGCAGTCCTGTGCCGTGCATCCCCGTCATGGCTCAGCATGTGCCTAAGCCCAGCCCATCCGACTCTCCCTCCAG
Seq C2 exon
GGCGATGAGGGTGGAGAGCGGGTGCTACAGCAGCGCTGGACCTCCTTCCTCAAGGCCCAGCTGCTGTGCTCACGGCCCGACGATGGCTTCCCCTTCAACGTGCTGCAGGATGTCTTCACGCTGAGCCCCAGCCCCCAGGACTGGCGTGACACCCTTTTCTATGGGGTCTTCACTTCCCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000185033-SEMA4B:NM_020210:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(11.4=100)
A:
NA
C2:
PF0140314=Sema=FE(13.7=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:
ACCCAGCTTTTGTGGCCTCA
R:
CACTGGGAAGTGAAGACCCCA
Band lengths:
334-2127
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)