WAKMAR2 (wound and keratinocyte migration associated lncRNA 2) - Rat Genome Database

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Gene: WAKMAR2 (wound and keratinocyte migration associated lncRNA 2) Homo sapiens
Analyze
Symbol: WAKMAR2
Name: wound and keratinocyte migration associated lncRNA 2
RGD ID: 14694743
HGNC Page HGNC:53754
Description: ASSOCIATED WITH familial Behcet-like autoinflammatory syndrome; INTERACTS WITH aristolochic acid A; bisphenol A; silicon dioxide
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: lnc-TNFAIP3
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386137,823,669 - 137,868,233 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6137,823,673 - 137,868,233 (-)EnsemblGRCh38hg38GRCh38
GRCh376138,144,806 - 138,189,370 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map6q23.3NCBI
HuRef6135,706,958 - 135,751,540 (-)NCBIHuRef
CHM1_16138,407,210 - 138,451,761 (-)NCBICHM1_1
T2T-CHM13v2.06139,012,092 - 139,056,654 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:19913121   PMID:20628086   PMID:27189370   PMID:30594489   PMID:30918008   PMID:36461623  


Genomics

Variants

.
Variants in WAKMAR2
3 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 6q23.2-27(chr6:133537271-165875545)x3 copy number gain See cases [RCV000143444] Chr6:133537271..165875545 [GRCh38]
Chr6:133858409..166289033 [GRCh37]
Chr6:133900102..166209023 [NCBI36]
Chr6:6q23.2-27		 pathogenic
GRCh38/hg38 6q23.3-25.3(chr6:135358150-155455117)x3 copy number gain See cases [RCV000136826] Chr6:135358150..155455117 [GRCh38]
Chr6:135679288..155776251 [GRCh37]
Chr6:135720981..155817943 [NCBI36]
Chr6:6q23.3-25.3		 pathogenic
GRCh38/hg38 6q13-24.1(chr6:74382807-142040500)x3 copy number gain See cases [RCV000139729] Chr6:74382807..142040500 [GRCh38]
Chr6:75092523..142361637 [GRCh37]
Chr6:75149243..142403330 [NCBI36]
Chr6:6q13-24.1		 pathogenic
Single allele deletion Autoinflammatory syndrome, familial, Behcet-like [RCV002247731] Chr6:134838331..142160056 [GRCh38]
Chr6:6q23.3-24.1		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:524
Count of miRNA genes:416
Interacting mature miRNAs:451
Transcripts:ENST00000431144, ENST00000448942, ENST00000606327, ENST00000606998, ENST00000607671
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 entire extraembryonic component
High
Medium 22 7 6 108 313 2 1 10 10 188
Low 2140 1435 1379 399 1707 238 2680 993 941 241 1352 1448 169 1130 1377 4
Below cutoff 268 1540 337 222 133 225 1355 1193 2725 175 85 147 1 74 1216

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000431144
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl6137,857,700 - 137,861,491 (-)Ensembl
RefSeq Acc Id: ENST00000440578
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl6137,823,673 - 137,825,894 (-)Ensembl
RefSeq Acc Id: ENST00000448942
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl6137,857,286 - 137,867,704 (-)Ensembl
RefSeq Acc Id: ENST00000606327
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl6137,854,862 - 137,858,048 (-)Ensembl
RefSeq Acc Id: ENST00000606998
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl6137,823,675 - 137,868,233 (-)Ensembl
RefSeq Acc Id: ENST00000607671
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl6137,857,593 - 137,867,704 (-)Ensembl
RefSeq Acc Id: ENST00000662141
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl6137,854,852 - 137,867,729 (-)Ensembl
RefSeq Acc Id: NR_049793
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh386137,823,669 - 137,868,233 (-)NCBI
T2T-CHM13v2.06139,012,092 - 139,056,654 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC WAKMAR2 COSMIC
Ensembl Genes ENSG00000237499 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000606998 ENTREZGENE
GTEx ENSG00000237499 GTEx
HGNC ID HGNC:53754 ENTREZGENE
Human Proteome Map WAKMAR2 Human Proteome Map
NCBI Gene WAKMAR2 ENTREZGENE
OMIM 618508 OMIM
RNAcentral URS000075B835 RNACentral