Gene: LINC00319 (long intergenic non-protein coding RNA 319) Homo sapiens
Analyze
Symbol:
LINC00319
Name:
long intergenic non-protein coding RNA 319
RGD ID:
1345223
Description:
Type:
protein-coding (Ensembl: lncRNA)
RefSeq Status:
MODEL
Previously known as:
C21orf125; FLJ38036; NCRNA00319; PRED49; uncharacterized protein LOC124900467
Allele / Splice:
See ClinVar data
Latest Assembly:
GRCh38 - Human Genome Assembly GRCh38
Position:
Human Assembly Chr Position (strand) Source Genome Browsers JBrowse NCBI UCSC Ensembl GRCh38 21 43,450,110 - 43,453,902 (+) NCBI GRCh38 GRCh38 hg38 GRCh38 GRCh38.p14 Ensembl 21 43,446,601 - 43,453,902 (+) Ensembl GRCh38 hg38 GRCh38 GRCh37 21 44,866,481 - 44,873,782 (+) NCBI GRCh37 GRCh37 hg19 GRCh37 Build 36 21 43,694,418 - 43,694,903 (+) NCBI NCBI36 Build 36 hg18 NCBI36 Build 34 21 43,694,331 - 43,698,210 NCBI Celera 21 29,976,153 - 29,980,022 (+) NCBI Celera Cytogenetic Map 21 q22.3 NCBI HuRef 21 30,238,456 - 30,242,328 (+) NCBI HuRef CHM1_1 21 44,430,779 - 44,434,648 (+) NCBI CHM1_1 T2T-CHM13v2.0 21 41,805,374 - 41,809,166 (+) NCBI T2T-CHM13v2.0
JBrowse:
View Region in Genome Browser (JBrowse)
Model
References
Genomics
Clinical Variants
GRCh38/hg38 21q22.12-22.3(chr21:35027972-46670405)x1 copy number loss
Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052836 ]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052836 ]|See cases [RCV000052836 ]
Chr21:35027972..46670405 [GRCh38]
pathogenic
GRCh38/hg38 21q22.13-22.3(chr21:38273492-46670405)x1 copy number loss
Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052838 ]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052838 ]|See cases [RCV000052838 ]
Chr21:38273492..46670405 [GRCh38]
pathogenic
miRNA Target Status
Predicted Target Of
Count of predictions: 510 Count of miRNA genes: 244 Interacting mature miRNAs: 254 Transcripts: ENST00000342757, ENST00000448049 Prediction methods: Miranda, Rnahybrid Result types: miRGate_prediction
Markers in Region
UniSTS:485691
Human Assembly Chr Position (strand) Source JBrowse GRCh37 21 44,869,967 - 44,870,497 UniSTS GRCh37 Build 36 21 43,694,395 - 43,694,925 RGD NCBI36 Celera 21 29,976,216 - 29,976,746 RGD HuRef 21 30,238,519 - 30,239,049 UniSTS
Expression
RNA-SEQ Expression
High: > 1000 TPM valueMedium: Between 11 and 1000 TPMLow: Between 0.5 and 10 TPMBelow 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
6
6
1
6
7
5
Low
38
139
134
7
135
6
2
21
32
152
104
3
1
Below cutoff
1416
1014
903
324
405
223
2479
1021
1831
156
888
879
110
639
1568
2
Sequence
RefSeq Acc Id:
ENST00000342757
Type:
CODING
Position:
Human Assembly Chr Position (strand) Source GRCh38.p14 Ensembl 21 43,450,024 - 43,453,902 (+) Ensembl
RefSeq Acc Id:
ENST00000448049
Type:
CODING
Position:
Human Assembly Chr Position (strand) Source GRCh38.p14 Ensembl 21 43,446,601 - 43,453,893 (+) Ensembl
RefSeq Acc Id:
ENST00000651768
Type:
CODING
Position:
Human Assembly Chr Position (strand) Source GRCh38.p14 Ensembl 21 43,450,406 - 43,453,769 (+) Ensembl
RefSeq Acc Id:
ENST00000701366
Type:
CODING
Position:
Human Assembly Chr Position (strand) Source GRCh38.p14 Ensembl 21 43,446,601 - 43,447,093 (+) Ensembl
RefSeq Acc Id:
XM_047441058 ⟹ XP_047297014
Type:
CODING
Position:
Human Assembly Chr Position (strand) Source GRCh38 21 43,450,110 - 43,453,886 (+) NCBI
RefSeq Acc Id:
XM_047441059 ⟹ XP_047297015
Type:
CODING
Position:
Human Assembly Chr Position (strand) Source GRCh38 21 43,450,110 - 43,453,902 (+) NCBI
RefSeq Acc Id:
XM_047441060 ⟹ XP_047297016
Type:
CODING
Position:
Human Assembly Chr Position (strand) Source GRCh38 21 43,450,110 - 43,453,886 (+) NCBI
RefSeq Acc Id:
XM_054324971 ⟹ XP_054180946
Type:
CODING
Position:
Human Assembly Chr Position (strand) Source T2T-CHM13v2.0 21 41,805,374 - 41,809,157 (+) NCBI
RefSeq Acc Id:
XM_054324972 ⟹ XP_054180947
Type:
CODING
Position:
Human Assembly Chr Position (strand) Source T2T-CHM13v2.0 21 41,805,374 - 41,809,166 (+) NCBI
RefSeq Acc Id:
XP_047297015 ⟸ XM_047441059
RefSeq Acc Id:
XP_047297016 ⟸ XM_047441060
RefSeq Acc Id:
XP_047297014 ⟸ XM_047441058
RefSeq Acc Id:
XP_054180947 ⟸ XM_054324972
RefSeq Acc Id:
XP_054180946 ⟸ XM_054324971
Promoters
RGD ID: 6799327 Promoter ID: HG_KWN:41091 Type: CpG-Island SO ACC ID: SO:0000170 Source: MPROMDB Tissues & Cell Lines: HeLa_S3 Transcripts: OTTHUMT00000195624 Position: Human Assembly Chr Position (strand) Source Build 36 21 43,690,176 - 43,690,676 (+) MPROMDB
RGD ID: 6799326 Promoter ID: HG_KWN:41092 Type: Non-CpG SO ACC ID: SO:0000170 Source: MPROMDB Tissues & Cell Lines: HeLa_S3 Transcripts: ENST00000342757 Position: Human Assembly Chr Position (strand) Source Build 36 21 43,694,276 - 43,694,776 (+) MPROMDB
Additional Information
Nomenclature History
Date
Current Symbol
Current Name
Previous Symbol
Previous Name
Description
Reference
Status
2011-09-01
LINC00319
long intergenic non-protein coding RNA 319
NCRNA00319
non-protein coding RNA 319
Symbol and/or name change
5135510 APPROVED
2011-07-27
NCRNA00319
non-protein coding RNA 319
C21orf125
chromosome 21 open reading frame 125
Symbol and/or name change
5135510 APPROVED
