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Gene: SYT9-AS1 (SYT9 antisense RNA 1) Homo sapiens

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Symbol:

SYT9-AS1

Name:

SYT9 antisense RNA 1

RGD ID:

16559221

HGNC Page

HGNC:56173

Description:

Type:

ncrna (Ensembl: lncRNA)

RefSeq Status:

VALIDATED

Previously known as:

AC107884.1; LOC100506258; novel transcript, antisense to OLFML1; uncharacterized LOC100506258

Allele / Splice:

See ClinVar data

Latest Assembly:

GRCh38.p14 Ensembl - Human Genome Assembly GRCh38 Ensembl

Position:

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	11	7,437,627 - 7,465,835 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	11	7,418,826 - 7,513,675 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	11	7,458,858 - 7,487,066 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Cytogenetic Map	11	p15.4	NCBI
HuRef	11	7,117,230 - 7,145,599 (-)	NCBI		HuRef
CHM1_1	11	7,457,776 - 7,485,984 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	11	7,495,988 - 7,524,201 (-)	NCBI		T2T-CHM13v2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

References

Additional References at PubMed

PMID:14702039	PMID:16344560	PMID:23382691

Genomics

Variants

Variants in SYT9-AS1
2 total Variants

Clinical Variants

Name	Type	Condition(s)	Position(s)	Clinical significance
GRCh38/hg38 11p15.5-13(chr11:202758-31726224)x3	copy number gain	See cases [RCV000053613]	Chr11:202758..31726224 [GRCh38] Chr11:202758..31747772 [GRCh37] Chr11:192758..31704348 [NCBI36] Chr11:11p15.5-13	pathogenic
GRCh38/hg38 11p15.4(chr11:3745061-7846057)x3	copy number gain	See cases [RCV000053616]	Chr11:3745061..7846057 [GRCh38] Chr11:3766291..7867604 [GRCh37] Chr11:3722867..7824180 [NCBI36] Chr11:11p15.4	pathogenic
GRCh38/hg38 11p15.4(chr11:7187414-7707594)x3	copy number gain	See cases [RCV000139155]	Chr11:7187414..7707594 [GRCh38] Chr11:7208645..7729141 [GRCh37] Chr11:7165221..7685717 [NCBI36] Chr11:11p15.4	uncertain significance
GRCh38/hg38 11p15.4(chr11:7359664-7657396)x1	copy number loss	See cases [RCV000141705]	Chr11:7359664..7657396 [GRCh38] Chr11:7380895..7678627 [GRCh37] Chr11:7337471..7635203 [NCBI36] Chr11:11p15.4	uncertain significance
GRCh38/hg38 11p15.5-15.4(chr11:61793-10727969)x3	copy number gain	See cases [RCV000139987]	Chr11:61793..10727969 [GRCh38] Chr11:61793..10749516 [GRCh37] Chr11:51793..10706092 [NCBI36] Chr11:11p15.5-15.4	pathogenic
GRCh38/hg38 11p15.5-15.1(chr11:446754-18904742)x3	copy number gain	See cases [RCV000133997]	Chr11:446754..18904742 [GRCh38] Chr11:446754..18926289 [GRCh37] Chr11:436754..18882865 [NCBI36] Chr11:11p15.5-15.1	pathogenic

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	1605
Count of miRNA genes:	857
Interacting mature miRNAs:	1005
Transcripts:	ENST00000504206, ENST00000514126, ENST00000525534, ENST00000526695, ENST00000526706, ENST00000530169, ENST00000530201, ENST00000530846, ENST00000533684, ENST00000533693
Prediction methods:	Microtar, Miranda, Rnahybrid
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

adipose tissue	alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	entire extraembryonic component	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system
1204	2402	2787	2244	4924	1719	2298	4	619	1933	461	2264	7226	6432	40	3690	833	1706	1569	165

Sequence

Nucleotide Sequences


RefSeq Transcripts	NR_103855	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC107884	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK128569	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC040358	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CP068267	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DA954419	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DA959881	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	OA985885	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	OA985886	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	OA985887	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	OA985888	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	OA985889	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	OA985890	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	OA985891	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	OA985892	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	OA985893	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	OA985894	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENST00000504206

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,437,627 - 7,461,344 (-)	Ensembl

Ensembl Acc Id:

ENST00000514126

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,427,266 - 7,440,525 (-)	Ensembl

Ensembl Acc Id:

ENST00000525534

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,435,828 - 7,440,692 (-)	Ensembl

Ensembl Acc Id:

ENST00000526695

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,441,415 - 7,465,830 (-)	Ensembl

Ensembl Acc Id:

ENST00000526706

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,450,377 - 7,465,835 (-)	Ensembl

Ensembl Acc Id:

ENST00000530169

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,427,946 - 7,465,822 (-)	Ensembl

Ensembl Acc Id:

ENST00000530201

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,418,826 - 7,513,472 (-)	Ensembl

Ensembl Acc Id:

ENST00000530846

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,427,587 - 7,435,630 (-)	Ensembl

Ensembl Acc Id:

ENST00000533684

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,457,032 - 7,465,774 (-)	Ensembl

Ensembl Acc Id:

ENST00000533693

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,435,723 - 7,465,790 (-)	Ensembl

Ensembl Acc Id:

ENST00000622955

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,427,266 - 7,504,872 (-)	Ensembl

Ensembl Acc Id:

ENST00000654089

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,434,097 - 7,513,628 (-)	Ensembl

Ensembl Acc Id:

ENST00000664943

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,439,092 - 7,513,644 (-)	Ensembl

Ensembl Acc Id:

ENST00000671315

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,426,262 - 7,513,113 (-)	Ensembl

Ensembl Acc Id:

ENST00000691856

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,441,400 - 7,513,661 (-)	Ensembl

Ensembl Acc Id:

ENST00000702494

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,507,553 - 7,513,665 (-)	Ensembl

Ensembl Acc Id:

ENST00000804696

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,427,617 - 7,513,585 (-)	Ensembl

Ensembl Acc Id:

ENST00000804697

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,448,261 - 7,513,614 (-)	Ensembl

Ensembl Acc Id:

ENST00000804698

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p14 Ensembl	11	7,487,794 - 7,513,675 (-)	Ensembl

RefSeq Acc Id:

NR_103855

RefSeq Status:

VALIDATED

Type:

NON-CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38	11	7,437,627 - 7,465,835 (-)	NCBI
T2T-CHM13v2.0	11	7,495,988 - 7,524,201 (-)	NCBI

Sequence:

show sequence

CTCATTTTCTCTTGCTGCTGCCATGTAAGAAGTGCCTTTTGCCTCCTGCCATGATTCTGAGGCC
TCCCCAGCCATGTGGAACTGGCTCAGTGTGGTCAAAAGAAGACTATAGAATCAAGGATGAAGAG
AAGGAACACAGAATAAAAGGACGTCTCAGCAGGAAGCTCTGTGACTACTATGTAATTCTTACAA
TACAGCAAATGATGCCATACAGTGAAGCACCTTGAAAGATTGCTGGGATAAGCTGACAGCATGG
CAGCCAAAATAGTGACCCCAGGCTTGCAGGAATTCTGTGCTTTCTGGAGGAAATGGTCATGGGT
TTCCCAACCTGCCTTTTAAACTAAGGACCGAGCTGAAGAAGCCCCCGTCTTCCAGCGCATGTTA
TTCCCATGACAGATGCTAAAAGTTCAAGGGGAGAGCTACAAGAAGTGCGTTTTCCTGTGGCTAC
TTTCATGTCTGGATGCAATGCCTAGACCTGCATCCATCTTGCGACCAACCTGAAGATGAACAGA
AAGGAAGGAAGGATGGCCCAATAGCCTGGGAAGAACTGGTGTTCCTGATACCATCATTAACCAC
AGAATCTACAATCCCGGAACCCCCCATCCTTAACCATGGAATCTACAATCCTATCTCTAGACCC
TTTGTCCAGATGCTACAGTTTCTTTGTTCAATCTAGTTTGTGTCAGGATTTCTGTTCATTACAT
CAAAAGTATTCTAATACTTGTAGCAAAGCAACTGGAGAAGTTTTCACTTTGTCTTTAACCAAAG
AAGACTTCCAGGAAACATCTCCTCAGTGGGTTTCTCCCTCACCACTGGATTTTTATCTCTGTAC
TAGTGCTTTGATTTGTTTTAGGAGTCTCACCTCTCCACCTGTCATATTTCCCTGGCAGGCTCAT
TTCTGCTAATGCCCACAATATGTGTATCAATGAGCTTTCAACGTTAGGTACACAGCTCTTCAGG
CATGTATAGCACATTAATCTGTCTGCTTCTAAGTGGTCTGTTGACATGTTTGGGTGCCAGTTAT
ATCTACAAGGCTGTGATCATTGTCCTGGGTTATTCTGTTTGTTCTCTCTGCAGGATGCATTAGG
ACACCCAAGGCCATGGCCATCACTTACATCTAGGATTCAATCTTATCTCCTGTGAATCACTGGA
AACCTCCTGTCCTGGAACCCTTTTTTTCCACATCCCACTGGATGTCATTCATAGCAACTGGTCT
TGTGGGTTGTCTATTTTATTGTGTTGTCTTACTCTTCCTCCTGGTATCAGTTTTTAAATCCTCT
TGATGAGATCAGCTGATCAGTCGCTAAGCAACATAGTCCCCCATGTCTTTGTAAGATTCTCTGC
ACTCATGGCTAGAATGATTTATTCTGGTATCTTAAGCTGTGTTTCAGAACCTCATTCTAAATAT
CAACCTATTCTTGTAAGTCCACTACTGATCATCTTTAGATATTCTTCAGTCTTCCAGAGTTCCA
AAGGGCAGTAGGAAGAAGCAATGAAAATACCACCTGTATTCTCACATCTTTCATTGTTCCACTC
AAAAAATACCACCATGTTCACTTCTGGTGGAACGTTTATGTCCATGAGAAGCAGTGGCTTTGAA
GAGTTTTGGCAGACTATGGCGCCTTACTCAACATTGGGAAGGTATCTTGCCATCAGACCTTTTG
GGTCTCCATGAAACTTCTTATACCCCCTCTGGGAAAAGTCACTAACTGTGATCTTACTGAGCTT
CTAAACACAGCATTTTTTTTACACTTAAGTGAGCGGGGGTCCTCCTCATTTGTGCTTCTCTTCT
TGTAAGGGTGACTTCCTCCCAGTAGGATGAATCTCATGCCTATTTGTGTTATTTTGCTAATTCC
AGCTTCTTTTCTACTCAGGGGGGTTCCAACTCTTTTAAGGTCTCATCTTCAGCACTTCTAAACT
GTGGGAAACTATGTGAAAACAAATGGAGTGGCCAAACACACCATTCATCACTGTGCTTCTGGAC
AGCTGCAAGTCCATACGTGTTCTGGTGAGTCTTCAGGTTGTACGGGAACAGAGGCTGAATCAAG
GCAGTTCAGTGAGAGTCTAGATGGGAGTGCTTATGGTGTTCTATAATAAAGTACTTATGGAACA
ATAATAGAAATGGATTCTTAGAGAAGCCCAAGAGAAGGAACTATGATTGCCTCATTTCCCTGAC
ATTTCTAAGTTTGGTGGCATAATCTAATTGACCCAACCCACCTTGGGGTGCCAGGCCATGTCAT
AAGTCACTGGACAGCCCATAAACAGCTTTCTGGGAGCATGTCCCCATCTTGATCCAATCACCTG
TGGCCAGGACATTTTACAAACCTCGGTGGTTAGGGCTGCTTGTTCAACAGATATTAGGGGTGAA
GTTGTACATGCATGCAGGGGAGGCTGAGATGGTAGGCACCGTGAATAACATGTTCCAGGGTGGG
CTCTGCCTCTTGTCTGCTCTGTAACATACCCCTGCTTCCTTGTCCTGACCTCTCATTTGCTAAA
GTCTGATTTCCAGCTTTGAAGTCTCTGCTCAATCTCTCCAGCCTTCTGCTCATGTCTTCACCTC
CTACCTTGCAGCCTGTCTTTTGACTTGATGTTGCTTGACTGCAATTCCTGTGACTTGGCCTTGG
GGTCCACTCCCATGAAATGCTTCTCTGGCAGCCTTGGCAGGTGTGTCCCAGTGTTCCTGAGTTC
CAGTGTTCCTGGCTGTGTCCTTGCACCAGAGCAGGCTGCTTGAGATTAGACACGCTCCTCCCTC
CTATCAGTCCACCTTGGCTCTGACACTTTCCTCAGCCTCCTTTTCTTTGTCTGCTGGAGCACAG
CAAAGTTTCCCAGAAGGTTTAAATTTACATTCTTGGTCAAGGTCTCACACCATCATGACACTGA
AGCAGATAGAGTGACTTCCTTCTCTTCTAAGCTGTGTGCATGCCTCCATGCCCCTACTAGTTTG
TATAATTCCAGTTTCTATAATTTCTTCCATTCTTTCCTGAAACTTTGTGCTTTCTGTTAAAGTA
GGTTTTTAGGGATATTTTTCAGGTCGGTTCATCCCTCTGAATGTCTTGGGTTTGTCTGATTGAA
GCCAAATGGACACAGTGAGTGTTTCCTTTCTGAGTGGAGGGAGGTGGCTCTTGCATCACCTTTG
GGTCCTTTAGAGCTTTAGAGTAAATGCTCAAAGACTGCCCACAGCTGGATTTGCTGGCTGTGAA
TTAGATCTGGGAGGAGAGGACTTAGCAGGAAAAAGCTTCTGTATCTAATGCTGAAATCAGAGAT
GAAGTCTGAACAGAAGTGCGACATCCAAGAGTCAGGGGCGGGATGTAGGAGGTGCATGGGATGA
CAGGGGCGGGGCTCTGATCTGAGAAGGGCAGTTTCAATGTGCACAGCAGAGCACTGGGGAGGGG
ATGTGTTGTTCCATACAAGCTGATGGAAGTTGATAGAAGAATAGGAACAAGGCTTGGATGGTGG
CAAAAGACCTACCTGCACCAATGTGAAAAAAGGGGCCCTTTCAAGGCTGAGCCAGGTTGGAAGA
GGGCAGAGCTGCTTCCAGGACACCAGAGAGTGCAGCAAGTATGCAGAGAAAACCTGGGCACCAA
GAGACCTGGGAGAGAGGAGGCAGATGGGTGGGCCAAAGTTCTGGTAGTTGGGAAAGGTGATAGA
AAGCACTGCATTAATGCTGGGTCCTCTGCCCTTGTACTAAGAGCAGCACATGGCTGCCTCTGAA
TCCTGCCCATGGAGTAACATTTGCTTCCATATGCCACAAAGATGAGATGGGGCCCTGATGTGCC
TGTTATAGGAGGGCAGAGCATCCTGTGTGCTCTGTGAGAAGAGCTGGGCCACGTATCTCCAGGT
CAAAGCCCGCACAGCAGTTATCCCCTCCCTCTCTTGTATCTTCAACCTTTCCTTTCCTATTGGG
AAGGATTTCCGTATTTCCAAGAGCCTGCTCAAGTGGGGTCAGCATGTGTCTCTGGTCACCACCC
TCTCCCCTGTGGAAGGCTGACAACTCTCCCATCTATACAAAATTTGAAACCACCAATTATATGA
TTGACACTATTACACTGGAACAATTTCCTGTCAGACTCCCCCACCAGACTCTTTACAGGCCGGT
GCTTCATCTACATCTCTCTGTCCACAGCACTTGGTGTAGTATTCGCAACCTAGCAGGAATGAAA
GAGTCCGTGTGGAGTCAAGCACCTCAGGGAACCCCTTGAAAGCAGTGACACATACCTCCAACAA
GAATTGCCTCTTCCTTCCTTCTGTGGCTTTGCACAGCATTTTTCTTTAATTATAAACACAGTTG
GTCTCTCTATGCTGTTTAGGCTAAGCACAGCACAGCTTCAAACTGGAAGGTTAAATATTTGTGG
TAAAAATAACTTATTTGTGCCCATGCAAATGTGGCAACACAAACTCAGGCATGTAGTGTTCTAT
GCAGAGAAGCTAAAACCAAGGAATGACATTAATTTCCGGTGAAAATATGTGATGACAATCTTAG
AATTCTGGCTTTTCAGAAAAAAAAAAAA

hide sequence

Additional Information

External Database Links

Database	Acc Id	Source(s)
COSMIC	SYT9-AS1	COSMIC
Ensembl Genes	ENSG00000251364	Ensembl, ENTREZGENE
Ensembl Transcript	ENST00000504206	ENTREZGENE
GTEx	ENSG00000251364	GTEx
HGNC ID	HGNC:56173	ENTREZGENE
Human Proteome Map	SYT9-AS1	Human Proteome Map
NCBI Gene	LOC100506258	ENTREZGENE
RNAcentral	URS0000059E14	RNACentral
	URS00000D2E11	RNACentral
	URS000011495C	RNACentral
	URS000013F9E3	RNACentral
	URS000016D98F	RNACentral
	URS000019B295	RNACentral
	URS000025FD6F	RNACentral
	URS0000384082	RNACentral
	URS00003F1F6F	RNACentral
	URS000075A6FA	RNACentral
	URS00007DFBC8	RNACentral
	URS0000EEB664	RNACentral
	URS0000EF0748	RNACentral
	URS0000EF24B9	RNACentral
	URS0000EF4365	RNACentral
	URS00022B3269	RNACentral
	URS00025E6342	RNACentral

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2022-01-17	SYT9-AS1	SYT9 antisense RNA 1	AC107884.1	novel transcript, antisense to OLFML1	Symbol and/or name change	19259463	PROVISIONAL
2020-06-25	AC107884.1	novel transcript, antisense to OLFML1	LOC100506258	uncharacterized LOC100506258	Symbol and/or name change	19259462	PROVISIONAL
2020-06-18	LOC100506258	uncharacterized LOC100506258	AC107884.1	novel transcript, antisense to OLFML1	Symbol and/or name change	5135510	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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