ZDHHC12-DT (ZDHHC12 divergent transcript) - Rat Genome Database

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Gene: ZDHHC12-DT (ZDHHC12 divergent transcript) Homo sapiens
Analyze
Symbol: ZDHHC12-DT
Name: ZDHHC12 divergent transcript
RGD ID: 16552602
HGNC Page HGNC:55873
Description: INTERACTS WITH 17beta-estradiol
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: AL441992.1; AL441992.2; LOC100506100; uncharacterized LOC100506100
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38.p14 Ensembl - Human Genome Assembly GRCh38 Ensembl
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389128,724,462 - 128,733,243 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9128,724,435 - 128,733,199 (+)EnsemblGRCh38hg38GRCh38
GRCh379131,486,741 - 131,495,522 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map9q34.11NCBI
HuRef9101,096,074 - 101,104,853 (+)NCBIHuRef
CHM1_19131,637,707 - 131,646,488 (+)NCBICHM1_1
T2T-CHM13v2.09140,929,229 - 140,938,007 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:12477932  


Genomics

Variants

.
Variants in ZDHHC12-DT
1 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 9p24.3-q34.3(chr9:193412-138179445)x3 copy number gain See cases [RCV000148113] Chr9:193412..138179445 [GRCh38]
Chr9:204193..141073897 [GRCh37]
Chr9:194193..140193718 [NCBI36]
Chr9:9p24.3-q34.3		 pathogenic
GRCh38/hg38 9p24.3-q34.3(chr9:193412-138159073)x3 copy number gain See cases [RCV000138962] Chr9:193412..138159073 [GRCh38]
Chr9:204104..141053525 [GRCh37]
Chr9:194104..140173346 [NCBI36]
Chr9:9p24.3-q34.3		 pathogenic|conflicting data from submitters
GRCh38/hg38 9q33.2-34.3(chr9:121073102-138179445)x3 copy number gain See cases [RCV000134920] Chr9:121073102..138179445 [GRCh38]
Chr9:123835380..141073897 [GRCh37]
Chr9:122875201..140193718 [NCBI36]
Chr9:9q33.2-34.3		 pathogenic
GRCh38/hg38 9p24.3-q34.3(chr9:204193-138179445) copy number gain See cases [RCV000133791] Chr9:204193..138179445 [GRCh38]
Chr9:204193..141073897 [GRCh37]
Chr9:194193..140193718 [NCBI36]
Chr9:9p24.3-q34.3		 pathogenic
GRCh38/hg38 9p24.3-q34.3(chr9:193412-138114463)x3 copy number gain See cases [RCV000053746] Chr9:193412..138114463 [GRCh38]
Chr9:214367..141008915 [GRCh37]
Chr9:204367..140128736 [NCBI36]
Chr9:9p24.3-q34.3		 pathogenic
GRCh38/hg38 9q34.11(chr9:127919476-130079974)x3 copy number gain See cases [RCV000053777] Chr9:127919476..130079974 [GRCh38]
Chr9:130681755..132842253 [GRCh37]
Chr9:129721576..131882074 [NCBI36]
Chr9:9q34.11		 pathogenic
GRCh38/hg38 9q33.3-34.11(chr9:125993583-129682375)x1 copy number loss See cases [RCV000052923] Chr9:125993583..129682375 [GRCh38]
Chr9:128755862..132444654 [GRCh37]
Chr9:127795683..131484475 [NCBI36]
Chr9:9q33.3-34.11		 pathogenic
GRCh38/hg38 9q34.11(chr9:127874581-130421811)x1 copy number loss See cases [RCV000052934] Chr9:127874581..130421811 [GRCh38]
Chr9:130636860..133297198 [GRCh37]
Chr9:129676681..132287019 [NCBI36]
Chr9:9q34.11		 pathogenic
GRCh38/hg38 9q34.11(chr9:128236347-128912067)x1 copy number loss See cases [RCV000138929] Chr9:128236347..128912067 [GRCh38]
Chr9:130998626..131674346 [GRCh37]
Chr9:130038447..130714167 [NCBI36]
Chr9:9q34.11		 pathogenic
GRCh38/hg38 9p24.3-q34.3(chr9:203862-138125937)x3 copy number gain See cases [RCV000143476] Chr9:203862..138125937 [GRCh38]
Chr9:203862..141020389 [GRCh37]
Chr9:193862..140140210 [NCBI36]
Chr9:9p24.3-q34.3		 pathogenic
GRCh38/hg38 9p24.3-q34.3(chr9:193412-138124532)x3 copy number gain See cases [RCV000053745] Chr9:193412..138124532 [GRCh38]
Chr9:204193..141018984 [GRCh37]
Chr9:194193..140138805 [NCBI36]
Chr9:9p24.3-q34.3		 pathogenic
GRCh38/hg38 9p24.3-q34.3(chr9:193412-138124524)x3 copy number gain See cases [RCV000138783] Chr9:193412..138124524 [GRCh38]
Chr9:204090..141018976 [GRCh37]
Chr9:194090..140138797 [NCBI36]
Chr9:9p24.3-q34.3		 pathogenic
GRCh38/hg38 9q34.11(chr9:128610170-129368351)x1 copy number loss See cases [RCV000138126] Chr9:128610170..129368351 [GRCh38]
Chr9:131372449..132130630 [GRCh37]
Chr9:130412270..131170451 [NCBI36]
Chr9:9q34.11		 uncertain significance
GRCh38/hg38 9p24.3-q34.3(chr9:203861-138125937)x3 copy number gain See cases [RCV000141876] Chr9:203861..138125937 [GRCh38]
Chr9:203861..141020389 [GRCh37]
Chr9:193861..140140210 [NCBI36]
Chr9:9p24.3-q34.3		 pathogenic
GRCh38/hg38 9q33.2-34.3(chr9:121112395-138075224)x3 copy number gain See cases [RCV000051009] Chr9:121112395..138075224 [GRCh38]
Chr9:123874673..140969676 [GRCh37]
Chr9:122914494..140089497 [NCBI36]
Chr9:9q33.2-34.3		 pathogenic
GRCh38/hg38 9p11.2-q34.3(chr9:193412-138159073)x3 copy number gain See cases [RCV000139207] Chr9:193412..138159073 [GRCh38]
Chr9:68420641..141053525 [GRCh37]
Chr9:67910461..140173346 [NCBI36]
Chr9:9p11.2-q34.3		 pathogenic
GRCh38/hg38 9p24.3-q34.3(chr9:193412-138179445)x3 copy number gain See cases [RCV000050348] Chr9:193412..138179445 [GRCh38]
Chr9:204193..141073897 [GRCh37]
Chr9:194193..140193718 [NCBI36]
Chr9:9p24.3-q34.3		 pathogenic
GRCh38/hg38 9q33.2-34.3(chr9:122792658-138124532)x3 copy number gain See cases [RCV000051040] Chr9:122792658..138124532 [GRCh38]
Chr9:125554937..141018984 [GRCh37]
Chr9:124594758..140138805 [NCBI36]
Chr9:9q33.2-34.3		 pathogenic
NM_006336.4(ZER1):c.2294C>T (p.Ser765Phe) single nucleotide variant not specified [RCV004149995] Chr9:128731344 [GRCh38]
Chr9:131493623 [GRCh37]
Chr9:9q34.11		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:236
Count of miRNA genes:220
Interacting mature miRNAs:234
Transcripts:ENST00000443631
Prediction methods:Miranda, Rnahybrid, Targetscan
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 visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High
Medium 125 17 268 88 788 56 127 33 539 72 382 290 44 7 3 3
Low 2311 2867 1455 533 1145 406 3843 1721 3170 347 1078 1321 129 1 1194 2403 3 2
Below cutoff 2 101 3 3 14 3 363 418 23 1 1 3 360

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000443631
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl9128,724,435 - 128,733,199 (+)Ensembl
RefSeq Acc Id: NR_046240
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh389128,724,462 - 128,733,243 (+)NCBI
T2T-CHM13v2.09140,929,229 - 140,938,007 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC ZDHHC12-DT COSMIC
Ensembl Genes ENSG00000223478 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000443631 ENTREZGENE
GTEx ENSG00000223478 GTEx
HGNC ID HGNC:55873 ENTREZGENE
Human Proteome Map ZDHHC12-DT Human Proteome Map
NCBI Gene LOC100506100 ENTREZGENE
RNAcentral URS000075A487 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-09-13 ZDHHC12-DT  ZDHHC12 divergent transcript  AL441992.1  novel transcript  Symbol and/or name change 19259463 PROVISIONAL
2020-08-20 AL441992.1  novel transcript  AL441992.2  novel transcript  Symbol and/or name change 19259462 PROVISIONAL
2020-06-25 AL441992.2  novel transcript  LOC100506100  uncharacterized LOC100506100  Symbol and/or name change 19259462 PROVISIONAL
2020-06-18 LOC100506100  uncharacterized LOC100506100  AL441992.2  novel transcript  Symbol and/or name change 5135510 APPROVED
2020-02-07 AL441992.2  novel transcript  AL441992.1  novel transcript  Symbol and/or name change 19259462 PROVISIONAL