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LINC00598 long intergenic non-protein coding RNA 598

Written2007-11Jean-Loup Huret
Genetics, Dept Medical Information, University of Poitiers, CHU Poitiers Hospital, F-86021 Poitiers, France

(Note : for Links provided by Atlas : click)


Alias (NCBI)FLJ21437
HGNC (Hugo) LINC00598
HGNC Alias symbTTL
HGNC Alias nametwelve-thirteen translocation leukemia transcript (non-protein coding)
LocusID (NCBI) 646982
Atlas_Id 529
Location 13q14  [Link to chromosome band 13q14]
Location_base_pair Starts at 40347134 and ends at 40481006 bp from pter ( according to GRCh38/hg38-Dec_2013)  [Mapping LINC00598.png]
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
Note Not to be confused with: TTL : tubulin tyrosine ligase (2q13), nor with "transthyretin-like (TTL) gene family", a family to which belongs TTR (transthyretin, 18q12).


Description Start at 39,822,377 bp from pter; the gene spans 119,929 bases on minus strand.
Transcription Three splicing forms, namely: TTL-T, TTL-B1 and -B2. TTL-T is 2090 bp long and composed of exons 1-8. The longest open-reading frame contains exons 4, 5, and part of exon 6; it encods a 133 amino acids peptid. TTL-B1 transcript is 3450 bp long and is composed of exons 4, 5, and part of exon 9. TTL-B2, 3588 bp long is composed of exons 4, 5, and part of exon 8a.


Note This gene/protein remains poorly known: there has been no study on it since the princeps paper by Qiao et al (2003).
Expression Ubiquitous expression (lung, liver, spleen, thymus, and bone marrow); major expression in brain and testis.
Homology TTL has no homology to known genes.

Implicated in

Entity t(12;13)(p13;q14) in B-cell acute lymphoblastic leukaemia (B-ALL) --> ETV6 /LINC00598
Note Only one case to date.
Hybrid/Mutated Gene Both reciprocal transcripts, TTL/ETV6 and ETV6/TTL, were detected. ETV6/TTL fusion transcript
The other transcript, TTL/ETV6, comprises 5' TTL exons 1 to 5 or to 8a, fused to ETV6 from exon 2. The predicted 530 amino acids fusion protein consists mostly of ETV6 with both HLH and ETS domains, and could have modified transcriptional activities. On the other hand, a loss of function of ETV6 and/or of TTL.could play the critical role in leukemogenesis.


Identification of a novel fusion gene, TTL, fused to ETV6 in acute lymphoblastic leukemia with t(12;13)(p13;q14), and its implication in leukemogenesis.
Qiao Y, Ogawa S, Hangaishi A, Yuji K, Izutsu K, Kunisato A, Imai Y, Wang L, Hosoya N, Nannya Y, Sato Y, Maki K, Mitani K, Hirai H.
Leukemia. 2003 Jun; 17(6): 1112-20.
PMID 12764377


This paper should be referenced as such :
Huret, JL
TTL (twelve-thirteen translocation leukemia)
Atlas Genet Cytogenet Oncol Haematol. 2008;12(4):295-295.
Free journal version : [ pdf ]   [ DOI ]

Other Leukemias implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(12;13)(p13;q14) LIN00598/ETV6

External links

HGNC (Hugo)LINC00598   42770
Entrez_Gene (NCBI)LINC00598    long intergenic non-protein coding RNA 598
GeneCards (Weizmann)LINC00598
Ensembl hg19 (Hinxton)ENSG00000215483 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000215483 [Gene_View]  ENSG00000215483 [Sequence]  chr13:40347134-40481006 [Contig_View]  LINC00598 [Vega]
ICGC DataPortalENSG00000215483
TCGA cBioPortalLINC00598
AceView (NCBI)LINC00598
Genatlas (Paris)LINC00598
SOURCE (Princeton)LINC00598
Genetics Home Reference (NIH)LINC00598
Genomic and cartography
GoldenPath hg38 (UCSC)LINC00598  -     chr13:40347134-40481006 -  13q14.11   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LINC00598  -     13q14.11   [Description]    (hg19-Feb_2009)
GoldenPathLINC00598 - 13q14.11 [CytoView hg19]  LINC00598 - 13q14.11 [CytoView hg38]
genome Data Viewer NCBILINC00598 [Mapview hg19]  
Gene and transcription
Genbank (Entrez)AK025090
RefSeq transcript (Entrez)
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LINC00598
Alternative Splicing GalleryENSG00000215483
Gene ExpressionLINC00598 [ NCBI-GEO ]   LINC00598 [ EBI - ARRAY_EXPRESS ]   LINC00598 [ SEEK ]   LINC00598 [ MEM ]
Gene Expression Viewer (FireBrowse)LINC00598 [ Firebrowse - Broad ]
GenevisibleExpression of LINC00598 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)646982
GTEX Portal (Tissue expression)LINC00598
Human Protein AtlasENSG00000215483-LINC00598 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Conserved Domain (NCBI)LINC00598
Blocks (Seattle)LINC00598
Human Protein Atlas [tissue]ENSG00000215483-LINC00598 [tissue]
Protein Interaction databases
Ontologies - Pathways
PubMed6 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri Feb 19 18:02:22 CET 2021

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