AL161630.1 (novel transcript) - Rat Genome Database

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Gene: AL161630.1 (novel transcript) Homo sapiens
Analyze
Symbol: AL161630.1
Name: novel transcript
RGD ID: 16555663
Description:
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: LOC101928797; uncharacterized LOC101928797
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38.p14 Ensembl - Human Genome Assembly GRCh38 Ensembl
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389117,648,606 - 117,657,027 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9117,643,151 - 117,657,032 (+)EnsemblGRCh38hg38GRCh38
GRCh379120,410,884 - 120,419,305 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map9q33.1NCBI
HuRef990,028,922 - 90,037,346 (+)NCBIHuRef
CHM1_19120,558,441 - 120,566,862 (+)NCBICHM1_1
T2T-CHM13v2.09129,842,440 - 129,850,860 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:12477932  


Genomics

Variants

.
Variants in AL161630.1
1 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
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 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(chr9:193412-138124532)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 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 [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(chr9:193412-138179445)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 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 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 9q31.2-33.1(chr9:107530314-117965944)x1 copy number loss See cases [RCV000140794] Chr9:107530314..117965944 [GRCh38]
Chr9:110292595..120728222 [GRCh37]
Chr9:109332416..119768043 [NCBI36]
Chr9:9q31.2-33.1		 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 9q33.1(chr9:117189877-119261350)x3 copy number gain See cases [RCV000148174] Chr9:117189877..119261350 [GRCh38]
Chr9:119952156..122023628 [GRCh37]
Chr9:118991977..121063449 [NCBI36]
Chr9:9q33.1		 uncertain significance
GRCh38/hg38 9q33.1(chr9:117189877-119261350)x3 copy number gain See cases [RCV000050343] Chr9:117189877..119261350 [GRCh38]
Chr9:119952156..122023628 [GRCh37]
Chr9:118991977..121063449 [NCBI36]
Chr9:9q33.1		 uncertain significance
GRCh38/hg38 9q33.1(chr9:117027717-119196572)x3 copy number gain See cases [RCV000141541] Chr9:117027717..119196572 [GRCh38]
Chr9:119789996..121958850 [GRCh37]
Chr9:118829817..120998671 [NCBI36]
Chr9:9q33.1		 uncertain significance
GRCh38/hg38 9q33.1(chr9:117132868-119269252)x3 copy number gain See cases [RCV000137303] Chr9:117132868..119269252 [GRCh38]
Chr9:119895147..122031530 [GRCh37]
Chr9:118934968..121071351 [NCBI36]
Chr9:9q33.1		 likely benign
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:67
Count of miRNA genes:62
Interacting mature miRNAs:62
Transcripts:ENST00000450938
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
High
Medium 2 3 1 1
Low 253 8 274 253 136 182 104 2 454 160 384 51 71 7 87
Below cutoff 954 908 736 273 600 196 1805 698 2811 125 492 544 78 566 1197

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000450938
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl9117,648,606 - 117,657,027 (+)Ensembl
RefSeq Acc Id: ENST00000657171
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl9117,643,151 - 117,657,032 (+)Ensembl
RefSeq Acc Id: NR_109806
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh389117,648,606 - 117,657,027 (+)NCBI
T2T-CHM13v2.09129,842,440 - 129,850,860 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC AL161630.1 COSMIC
Ensembl Genes ENSG00000233569 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000450938 ENTREZGENE
GTEx ENSG00000233569 GTEx
Human Proteome Map AL161630.1 Human Proteome Map
NCBI Gene LOC101928797 ENTREZGENE
RNAcentral URS000075CEBB RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-06-25 AL161630.1  novel transcript  LOC101928797  uncharacterized LOC101928797  Symbol and/or name change 19259462 PROVISIONAL
2020-06-18 LOC101928797  uncharacterized LOC101928797  AL161630.1  novel transcript  Symbol and/or name change 5135510 APPROVED