HsaINT0147320 @ hg38
Intron Retention
Gene
ENSG00000196189 | SEMA4A
Description
semaphorin 4A [Source:HGNC Symbol;Acc:HGNC:10729]
Coordinates
chr1:156153527-156154717:+
Coord C1 exon
chr1:156153527-156153764
Coord A exon
chr1:156153765-156154549
Coord C2 exon
chr1:156154550-156154717
Length
785 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
CCGGGTGCCTGTTTCCCCAGAGC
3' ss Score
7.68
Exon sequences
Seq C1 exon
CCAGGATCTGTCACAACTCGAGAGGTGGAAATTCCGGTTTCCCTGGCCTAGAGCTCCCAGTGCTGGCTTTGGCATGATGGGCACCTGGAGGGCCGCACTCCCGTTCCAGCCAGGCTGAGCCTTCTGTCCCCTGCCTCTGGGGCCTGGGAACCCCCCTTCTTCTTTCTCCTGAATGGCACCCCCGCCCTAGAATCCAGACACCGAGTTTCCCACTGTGGCTGGTTCAAGGGTATGTGAG
Seq A exon
GTGAGATGGGTGGCTTGGGGTGGGTGGTCTTGGGGAAGATTATGTAGAGGCCCAGGGAGGCAGACACAGGAGCAAGAGACAAGGGGGCCGGGGAGCTGCAGAGGCTGGGAGCCGGCCAGCCACCCCTGCCCAGGCAGCTCCCCGGGAAATGCTGATAACCAACCTGGTGGGATGGACCCTCATTGCCTCCCTGGAAGTATCAGGCCAGGCAGGCCTGAGCCTCAAAGACCCTGAACCCAGCTGGGGCTGGGGGAGAGGTTAGAGCAGGCAGACTCAAACCCAGTCTGCCTACCTGGGTCAGAGCTGAGTATGAGGCACAGGTGTCAACAGATCTGAAAGTGACAGGAGAGTAAGGTCTGAGGAATTTATATTTTGGGTACAGGAACCTGCTCCCCAAAATGTTCCCTGCCCAGAGCCAGGCAACGGTTTGGGCTTGGGCTATGAGAAGAGGGAAGGCAAAGGAGGAAAGACAGGAAAGACTTCCTGAGAGTAAGGCAAAAAAAGGCAAACCAGAGCTGTTGGTGAGAAGACAACAGAAGAAGCAGGATAGGGGAGACCTGGGCTCCTACCCATAGGGGACAGTGAGGTGACAGGCTGAGGCCTGGAAGGATGATGAAAGTGAGACCGTCTTAGGGCCCTTCCAGATAGGGAACCTTCTCTGCCCCAATGCCCCACCCCTGCCACCAATACACACGCTTCTGCTGCCTGGGGCTCTCCTATTGGTCCTCGGGGGGATGTGGTAAGAACTGCTCACCCAGAAAGTGCCCGGGTGCCTGTTTCCCCAG
Seq C2 exon
AGCTCCCTGGTGACAGTCTGTGGCTGAGCATGGCCCTCCCAGCCCTGGGCCTGGACCCCTGGAGCCTCCTGGGCCTTTTCCTCTTCCAACTGCTTCAGCTGCTGCTGCCGACGACGACCGCGGGGGGAGGCGGGCAGGGGCCCATGCCCAGGGTCAGATACTATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196189:ENST00000368285:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.055
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGCTGGCTTTGGCATGATG
R:
AGTATCTGACCCTGGGCATGG
Band lengths:
342-1127
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