FER1L6-AS1 (FER1L6 antisense RNA 1) - Rat Genome Database

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Gene: FER1L6-AS1 (FER1L6 antisense RNA 1) Homo sapiens
Analyze
Symbol: FER1L6-AS1
Name: FER1L6 antisense RNA 1
RGD ID: 1605483
HGNC Page HGNC
Description: INTERACTS WITH benzo[a]pyrene
Type: ncrna
RefSeq Status: VALIDATED
Also known as: C8orf54; FLJ35721; RP11-245A18.2
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl8123,984,138 - 124,040,782 (-)EnsemblGRCh38hg38GRCh38
GRCh388123,984,138 - 124,040,782 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh378124,996,378 - 125,053,023 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 368125,065,559 - 125,122,204 (-)NCBINCBI36hg18NCBI36
Celera8121,184,425 - 121,241,055 (-)NCBI
Cytogenetic Map8q24.13NCBI
HuRef8120,323,136 - 120,379,787 (-)NCBIHuRef
CHM1_18125,036,692 - 125,093,329 (-)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References

References - curated
1. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
Additional References at PubMed
PMID:12477932   PMID:14702039  


Genomics

Position Markers
RH65554  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh378125,019,176 - 125,019,325UniSTSGRCh37
Build 368125,088,357 - 125,088,506RGDNCBI36
Celera8121,207,203 - 121,207,352RGD
Cytogenetic Map8q24.13UniSTS
Cytogenetic Map8q24.1UniSTS
HuRef8120,345,934 - 120,346,083UniSTS
GeneMap99-GB4 RH Map8476.51UniSTS
NCBI RH Map81460.5UniSTS
D8S54  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh378125,045,998 - 125,046,072UniSTSGRCh37
Build 368125,115,179 - 125,115,253RGDNCBI36
Celera8121,234,030 - 121,234,104RGD
Cytogenetic Map8q24.13UniSTS
Cytogenetic Map8q24.1UniSTS
HuRef8120,372,762 - 120,372,836UniSTS

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:170
Count of miRNA genes:162
Interacting mature miRNAs:167
Transcripts:ENST00000518567
Prediction methods: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
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system adipose tissue appendage
High
Medium
Low 6 6 307 1
Below cutoff 456 174 199 27 128 13 297 199 361 22 130 197 14 58 227

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000518567
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl8123,984,138 - 124,040,782 (-)Ensembl
RefSeq Acc Id: NR_040044
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh388123,984,138 - 124,040,782 (-)NCBI
GRCh378124,996,378 - 125,053,023 (-)ENTREZGENE
HuRef8120,323,136 - 120,379,787 (-)ENTREZGENE
CHM1_18125,036,692 - 125,093,329 (-)NCBI
Sequence:
Protein Sequences
GenBank Protein AAI37358 (Get FASTA)   NCBI Sequence Viewer  
  BAC04029 (Get FASTA)   NCBI Sequence Viewer  
  EAW92055 (Get FASTA)   NCBI Sequence Viewer  
  Q8NA97 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences

Promoters
RGD ID:15096282
Promoter ID:EPDNEWNC_H1095
Type:initiation region
Name:FER1L6-AS1_1
Description:FER1L6 antisense RNA 1 [Source:HGNC Symbol;Acc:HGNC:26652]
SO ACC ID:SO:0000170
Source:EPDNEWNC (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh388124,040,791 - 124,040,851EPDNEWNC

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
NM_001039112.2(FER1L6):c.1899C>T (p.Leu633=) single nucleotide variant Malignant melanoma [RCV000061747] Chr8:124013508 [GRCh38]
Chr8:125025748 [GRCh37]
Chr8:125094929 [NCBI36]
Chr8:8q24.13
not provided
GRCh38/hg38 8q24.13-24.21(chr8:122454392-128513076)x3 copy number gain See cases [RCV000133620] Chr8:122454392..128513076 [GRCh38]
Chr8:123466631..129525322 [GRCh37]
Chr8:123535812..129594504 [NCBI36]
Chr8:8q24.13-24.21
pathogenic
GRCh38/hg38 8q22.1-24.3(chr8:94682154-145068656)x3 copy number gain See cases [RCV000134353] Chr8:94682154..145068656 [GRCh38]
Chr8:95694382..146294042 [GRCh37]
Chr8:95763558..146264846 [NCBI36]
Chr8:8q22.1-24.3
pathogenic
GRCh38/hg38 8q21.3-24.23(chr8:86300584-137022587)x3 copy number gain See cases [RCV000135621] Chr8:86300584..137022587 [GRCh38]
Chr8:87312813..138034830 [GRCh37]
Chr8:87381929..138104012 [NCBI36]
Chr8:8q21.3-24.23
pathogenic|likely pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241605-145054781)x3 copy number gain See cases [RCV000138643] Chr8:241605..145054781 [GRCh38]
Chr8:191605..146280167 [GRCh37]
Chr8:181605..146250971 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q21.3-24.3(chr8:87931152-145068712)x3 copy number gain See cases [RCV000138551] Chr8:87931152..145068712 [GRCh38]
Chr8:88943380..146294098 [GRCh37]
Chr8:89012496..146264902 [NCBI36]
Chr8:8q21.3-24.3
pathogenic
GRCh38/hg38 8q21.13-24.3(chr8:77480050-145068712)x3 copy number gain See cases [RCV000139036] Chr8:77480050..145068712 [GRCh38]
Chr8:78392286..146294098 [GRCh37]
Chr8:78554841..146264902 [NCBI36]
Chr8:8q21.13-24.3
pathogenic
GRCh38/hg38 8q22.1-24.3(chr8:97382873-145070385)x3 copy number gain See cases [RCV000140447] Chr8:97382873..145070385 [GRCh38]
Chr8:98395101..146295771 [GRCh37]
Chr8:98464277..146266575 [NCBI36]
Chr8:8q22.1-24.3
pathogenic
GRCh38/hg38 8q11.1-24.3(chr8:46031340-139285494)x3 copy number gain See cases [RCV000139539] Chr8:46031340..139285494 [GRCh38]
Chr8:46942962..140297737 [GRCh37]
Chr8:47062127..140366919 [NCBI36]
Chr8:8q11.1-24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:208048-145070385)x3 copy number gain See cases [RCV000141808] Chr8:208048..145070385 [GRCh38]
Chr8:158048..146295771 [GRCh37]
Chr8:148048..146266575 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q22.3-24.3(chr8:100867343-145070385)x3 copy number gain See cases [RCV000141694] Chr8:100867343..145070385 [GRCh38]
Chr8:101879571..146295771 [GRCh37]
Chr8:101948747..146266575 [NCBI36]
Chr8:8q22.3-24.3
pathogenic
GRCh38/hg38 8p21.3-q24.3(chr8:21291522-145070385)x3 copy number gain See cases [RCV000142021] Chr8:21291522..145070385 [GRCh38]
Chr8:21149033..146295771 [GRCh37]
Chr8:21193313..146266575 [NCBI36]
Chr8:8p21.3-q24.3
pathogenic
GRCh38/hg38 8q22.3-24.3(chr8:103306336-145068712)x3 copy number gain See cases [RCV000142810] Chr8:103306336..145068712 [GRCh38]
Chr8:104318564..146294098 [GRCh37]
Chr8:104387740..146264902 [NCBI36]
Chr8:8q22.3-24.3
pathogenic|likely pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:226452-145068712)x3 copy number gain See cases [RCV000142858] Chr8:226452..145068712 [GRCh38]
Chr8:176452..146294098 [GRCh37]
Chr8:166452..146264902 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q21.13-24.3(chr8:78614077-145054634)x3 copy number gain See cases [RCV000142597] Chr8:78614077..145054634 [GRCh38]
Chr8:79526312..146280020 [GRCh37]
Chr8:79688867..146250824 [NCBI36]
Chr8:8q21.13-24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145054634)x3 copy number gain See cases [RCV000148092] Chr8:241530..145054634 [GRCh38]
Chr8:191530..146280020 [GRCh37]
Chr8:181530..146250824 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q21.2-24.3(chr8:85765999-145070385)x3 copy number gain See cases [RCV000143659] Chr8:85765999..145070385 [GRCh38]
Chr8:86778228..146295771 [GRCh37]
Chr8:86863079..146266575 [NCBI36]
Chr8:8q21.2-24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145049449)x3 copy number gain See cases [RCV000051206] Chr8:241530..145049449 [GRCh38]
Chr8:191530..146274835 [GRCh37]
Chr8:181530..146245639 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q23.3-24.3(chr8:113580402-145054634)x3 copy number gain See cases [RCV000050638] Chr8:113580402..145054634 [GRCh38]
Chr8:114592631..146280020 [GRCh37]
Chr8:114661807..146250824 [NCBI36]
Chr8:8q23.3-24.3
pathogenic
GRCh38/hg38 8q22.1-24.3(chr8:95606052-145054775)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053677]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053677]|See cases [RCV000053677] Chr8:95606052..145054775 [GRCh38]
Chr8:96618280..146280161 [GRCh37]
Chr8:96687456..146250965 [NCBI36]
Chr8:8q22.1-24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145054634)x3 copy number gain See cases [RCV000053602] Chr8:241530..145054634 [GRCh38]
Chr8:191530..146280020 [GRCh37]
Chr8:181530..146250824 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:244417-145054775)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053604]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053604]|See cases [RCV000053604] Chr8:244417..145054775 [GRCh38]
Chr8:194417..146280161 [GRCh37]
Chr8:184417..146250965 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q23.3-24.21(chr8:113288454-126716087)x1 copy number loss See cases [RCV000054301] Chr8:113288454..126716087 [GRCh38]
Chr8:114300683..127728332 [GRCh37]
Chr8:114369859..127797514 [NCBI36]
Chr8:8q23.3-24.21
pathogenic
NM_001039112.2(FER1L6):c.2414C>T (p.Ser805Phe) single nucleotide variant not provided [RCV000910644] Chr8:124035404 [GRCh38]
Chr8:125047645 [GRCh37]
Chr8:8q24.13
likely benign

Additional Information

Database Acc Id Source(s)
COSMIC FER1L6-AS1 COSMIC
Ensembl Genes ENSG00000181171 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000518567 ENTREZGENE
GTEx ENSG00000181171 GTEx
HGNC ID HGNC:26652 ENTREZGENE
Human Proteome Map FER1L6-AS1 Human Proteome Map
NCBI Gene 439941 ENTREZGENE
PharmGKB PA142672317 PharmGKB
RNAcentral URS00002383B7 RNACentral
UniProt FEAS1_HUMAN UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary B2RPB9 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-08-21 FER1L6-AS1  FER1L6 antisense RNA 1  FER1L6-AS1  FER1L6 antisense RNA 1 (non-protein coding)  Symbol and/or name change 5135510 APPROVED
2011-07-27 FER1L6-AS1  FER1L6 antisense RNA 1 (non-protein coding)  C8orf54  chromosome 8 open reading frame 54  Symbol and/or name change 5135510 APPROVED