HsaINT0147342 @ hg38
Intron Retention
Gene
ENSG00000185033 | SEMA4B
Description
semaphorin 4B [Source:HGNC Symbol;Acc:HGNC:10730]
Coordinates
chr15:90219793-90221093:+
Coord C1 exon
chr15:90219793-90219891
Coord A exon
chr15:90219892-90220981
Coord C2 exon
chr15:90220982-90221093
Length
1090 bp
Sequences
Splice sites
5' ss Seq
ATCGTGAGT
5' ss Score
8.88
3' ss Seq
ATGTGTCCACCCTCCTGCAGAAC
3' ss Score
10.81
Exon sequences
Seq C1 exon
CGCGACTGTCAAAACTACATCAAGATCCTCCTGCCGCTCAGCGGCAGTCACCTGTTCACCTGTGGCACAGCAGCCTTCAGCCCCATGTGTACCTACATC
Seq A exon
GTGAGTGACCTGTCCTCAGCCCTGAGGCTGACCTGGGAACTGCCCCTCTTTCTGCCCCAGGGATCCTGTTCTGTAGCATAGACCCCTGAGGAAAGGCAGGGCCCAGAGGGAGGTTTCTAGGTACCACTGGCCTCCAAGAGCCCTGAGGTCCCACACCCTGGCACAAAGCGCAGCCCTGACAGCCATGTCTCCCTGTGCGGGGAGGCGGGGGCACATGCGGTCACTTACCCATGAAGATCCTGTGCCACCCAGGCCTTGCTGCCCTCTTCTGCTTCTTCCAGCATCTCTCCCTCTCCTTTGCTTGATTCTCTTGTCTTATCTTGTACACCCCCTCCTCAGCACACACCCCTAGCAGAGGGTGGCATTTGATGCTGTGGGTTGGAGCCCAGCTTTGGGGTCAGACACACCTGGGTTTGAATCACATTGCTGCCCCTTCCAGGCTCACATCATTTTATTTCTTTTTTCTTTTTCTTTTCTTTTTTTTTTTTTTTTTTGAGATGGAGTCTCGCTCTGTCGCCCAGGCTGGAGTGCAGTGGCACGATCTCGGCTCACTGCAAGCTCTGCCTCCTGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGTGCCCGCCACCACGCCTGGCTAATTTTTTCTATTTTTCGGTAGAGAGGGGGGTTTCACCGTGTTAGCCAGGATGGTCTTGATCTCCTGACCTCGTGATCCACCCGCCTCGGCCTCCCAGAGTGCTGGGATTACAGGTGTGAGCCACCGCGCCCGGCCAGGCTCACATCATTTTCTAAGCCTCACCTCCTCCGCCAGGTGGGTCTGATAATGTGTCCCGCGTCGGGTCACTGTGAGGCAGTGTGGCACTGTGTCTGGGTGAGGCCTCTCCTGAGGCCGACTGTCCAGGTTCAAACCCTTCGGCACCGTGTCCTGGCTGAGGAGGACGGCGTCCCTGACACCTGACCCCTTCTGTCCCACACACCTCACCTGCCTGCAGAGTTGCCTTCTCCTGCACGCCTCTCTCTTTCTCACCAAGCCTGCTCCTCATTCCCTGGAGTGCCCCTGAGCCCATGTGTCCACCCTCCTGCAG
Seq C2 exon
AACATGGAGAACTTCACCCTGGCAAGGGACGAGAAGGGGAATGTCCTCCTGGAAGATGGCAAGGGCCGTTGTCCCTTCGACCCGAATTTCAAGTCCACTGCCCTGGTGGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000185033:ENST00000411539:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.115
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(7.3=100)
A:
NA
C2:
PF0140314=Sema=FE(8.4=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:
CGCGACTGTCAAAACTACATCA
R:
ACCAGGGCAGTGGACTTGAAA
Band lengths:
206-1296
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