CCDC144NL-AS1 (CCDC144NL antisense RNA 1) - Rat Genome Database

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Gene: CCDC144NL-AS1 (CCDC144NL antisense RNA 1) Homo sapiens
Analyze
Symbol: CCDC144NL-AS1
Name: CCDC144NL antisense RNA 1
RGD ID: 9589987
Description:
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381720,938,566 - 20,982,357 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1720,868,433 - 21,002,276 (+)EnsemblGRCh38hg38GRCh38
GRCh371720,841,879 - 20,885,670 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map17p11.2NCBI
HuRef1720,026,936 - 20,045,431 (+)NCBIHuRef
CHM1_11720,850,581 - 20,894,422 (+)NCBICHM1_1
T2T-CHM13v2.01720,887,381 - 20,931,176 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:12477932   PMID:16344560  


Genomics

Variants

.
Variants in CCDC144NL-AS1
1 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 17p11.2(chr17:19744033-21598663)x3 copy number gain See cases [RCV000142733] Chr17:19744033..21598663 [GRCh38]
Chr17:19647346..21501929 [GRCh37]
Chr17:19587938..21442522 [NCBI36]
Chr17:17p11.2		 uncertain significance
GRCh38/hg38 17p11.2(chr17:16426633-20998588)x3 copy number gain See cases [RCV000143715] Chr17:16426633..20998588 [GRCh38]
Chr17:16329947..20901901 [GRCh37]
Chr17:16270672..20842493 [NCBI36]
Chr17:17p11.2		 pathogenic
GRCh38/hg38 17p11.2(chr17:20879426-22533437)x3 copy number gain See cases [RCV000053124] Chr17:20879426..22533437 [GRCh38]
Chr17:20782739..22032763 [GRCh37]
Chr17:20723331..21956890 [NCBI36]
Chr17:17p11.2		 uncertain significance
GRCh38/hg38 17p11.2(chr17:19070690-21619442)x3 copy number gain See cases [RCV000054009] Chr17:19070690..21619442 [GRCh38]
Chr17:18974003..21522709 [GRCh37]
Chr17:18914728..21463302 [NCBI36]
Chr17:17p11.2		 uncertain significance
GRCh38/hg38 17p11.2(chr17:19239860-21530183)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000054010]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000054010]|See cases [RCV000054010] Chr17:19239860..21530183 [GRCh38]
Chr17:19143173..21433444 [GRCh37]
Chr17:19083766..21374037 [NCBI36]
Chr17:17p11.2		 uncertain significance
GRCh38/hg38 17p11.2(chr17:20935766-21621469)x1 copy number loss See cases [RCV000051216] Chr17:20935766..21621469 [GRCh38]
Chr17:20839079..21529632 [GRCh37]
Chr17:20779671..21471956 [NCBI36]
Chr17:17p11.2		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2857
Count of miRNA genes:1036
Interacting mature miRNAs:1278
Transcripts:ENST00000417232, ENST00000423473, ENST00000433763, ENST00000437829, ENST00000439794, ENST00000443508, ENST00000577537, ENST00000577841, ENST00000577860, ENST00000577968, ENST00000579168, ENST00000580056, ENST00000580278, ENST00000581958, ENST00000582324, ENST00000583481, ENST00000583962, ENST00000584433
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
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 5 16 10 9 47 9 101 3 18 2 37 15 2 2
Low 246 1227 102 56 179 50 828 116 133 48 980 406 8 267 580 1
Below cutoff 2107 1558 1523 493 1159 344 3287 1984 3533 307 373 1103 158 925 2129 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_123730 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_160712 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_160713 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_160714 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_160715 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_160716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_160717 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_160718 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_160719 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_160720 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_160721 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_160722 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC087393 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC090774 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC107926 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC043529 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CP068261 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DB066214 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000417232
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,868,505 - 20,924,425 (+)Ensembl
RefSeq Acc Id: ENST00000423473
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,938,578 - 20,998,028 (+)Ensembl
RefSeq Acc Id: ENST00000433763
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,938,566 - 20,958,389 (+)Ensembl
RefSeq Acc Id: ENST00000437829
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,949,239 - 20,979,752 (+)Ensembl
RefSeq Acc Id: ENST00000439794
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,868,497 - 20,994,142 (+)Ensembl
RefSeq Acc Id: ENST00000443508
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,868,484 - 20,930,046 (+)Ensembl
RefSeq Acc Id: ENST00000577537
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,868,433 - 20,905,230 (+)Ensembl
RefSeq Acc Id: ENST00000577841
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,921,152 - 20,930,046 (+)Ensembl
RefSeq Acc Id: ENST00000577860
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,868,547 - 20,932,818 (+)Ensembl
RefSeq Acc Id: ENST00000577968
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,929,756 - 20,938,522 (+)Ensembl
RefSeq Acc Id: ENST00000579168
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,955,817 - 20,958,326 (+)Ensembl
RefSeq Acc Id: ENST00000580056
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,938,520 - 20,994,292 (+)Ensembl
RefSeq Acc Id: ENST00000580278
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,929,755 - 20,939,519 (+)Ensembl
RefSeq Acc Id: ENST00000581958
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,951,431 - 21,002,276 (+)Ensembl
RefSeq Acc Id: ENST00000582324
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,868,543 - 20,899,131 (+)Ensembl
RefSeq Acc Id: ENST00000582583
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,938,538 - 20,982,357 (+)Ensembl
RefSeq Acc Id: ENST00000583481
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,938,551 - 21,002,007 (+)Ensembl
RefSeq Acc Id: ENST00000583962
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,868,520 - 20,905,230 (+)Ensembl
RefSeq Acc Id: ENST00000584433
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,956,294 - 20,958,721 (+)Ensembl
RefSeq Acc Id: ENST00000662319
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,921,013 - 20,933,416 (+)Ensembl
RefSeq Acc Id: ENST00000692309
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,868,487 - 20,930,041 (+)Ensembl
RefSeq Acc Id: ENST00000692759
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1720,868,443 - 20,930,041 (+)Ensembl
RefSeq Acc Id: NR_123730
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381720,938,566 - 20,982,357 (+)NCBI
T2T-CHM13v2.01720,887,381 - 20,931,176 (+)NCBI
Sequence:
RefSeq Acc Id: NR_160712
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381720,938,566 - 20,982,357 (+)NCBI
T2T-CHM13v2.01720,887,381 - 20,931,176 (+)NCBI
Sequence:
RefSeq Acc Id: NR_160713
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381720,938,566 - 20,980,349 (+)NCBI
T2T-CHM13v2.01720,887,381 - 20,929,168 (+)NCBI
Sequence:
RefSeq Acc Id: NR_160714
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381720,938,566 - 20,980,349 (+)NCBI
T2T-CHM13v2.01720,887,381 - 20,929,168 (+)NCBI
Sequence:
RefSeq Acc Id: NR_160715
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381720,938,566 - 20,958,697 (+)NCBI
T2T-CHM13v2.01720,887,381 - 20,907,512 (+)NCBI
Sequence:
RefSeq Acc Id: NR_160716
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381720,938,566 - 20,980,349 (+)NCBI
T2T-CHM13v2.01720,887,381 - 20,929,168 (+)NCBI
Sequence:
RefSeq Acc Id: NR_160717
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381720,938,566 - 20,982,357 (+)NCBI
T2T-CHM13v2.01720,887,381 - 20,931,176 (+)NCBI
Sequence:
RefSeq Acc Id: NR_160718
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381720,938,566 - 20,980,349 (+)NCBI
T2T-CHM13v2.01720,887,381 - 20,929,168 (+)NCBI
Sequence:
RefSeq Acc Id: NR_160719
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381720,938,566 - 20,958,697 (+)NCBI
T2T-CHM13v2.01720,887,381 - 20,907,512 (+)NCBI
Sequence:
RefSeq Acc Id: NR_160720
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381720,938,566 - 20,958,697 (+)NCBI
T2T-CHM13v2.01720,887,381 - 20,907,512 (+)NCBI
Sequence:
RefSeq Acc Id: NR_160721
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381720,938,566 - 20,982,357 (+)NCBI
T2T-CHM13v2.01720,887,381 - 20,931,176 (+)NCBI
Sequence:
RefSeq Acc Id: NR_160722
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381720,938,566 - 20,980,349 (+)NCBI
T2T-CHM13v2.01720,887,381 - 20,929,168 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC CCDC144NL-AS1 COSMIC
Ensembl Genes ENSG00000233098 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000582583 ENTREZGENE
GTEx ENSG00000233098 GTEx
Human Proteome Map CCDC144NL-AS1 Human Proteome Map
NCBI Gene LOC339260 ENTREZGENE
RNAcentral URS0000E60A1A RNACentral
  URS0000E60A2F RNACentral
  URS0000E60A34 RNACentral
  URS0000E60A40 RNACentral
  URS0000E60A5E RNACentral
  URS0000E60A90 RNACentral
  URS0000E60A96 RNACentral
  URS0000E60AAD RNACentral
  URS0000E60AB8 RNACentral
  URS0000E60ACB RNACentral
  URS0000E60B42 RNACentral
  URS0000E60B49 RNACentral