Human Gene LTN1 (uc002ymr.2)
Description: Homo sapiens listerin E3 ubiquitin protein ligase 1 (LTN1), mRNA.
RefSeq Summary (NM_015565): Like most RING finger proteins, LTN1 functions as an E3 ubiquitin ligase (Chu et al., 2009 [PubMed 19196968]).[supplied by OMIM, Nov 2010].
Transcript (Including UTRs)
Position: hg19 chr21:30,300,466-30,365,277 Size: 64,812 Total Exon Count: 30 Strand: -
Coding Region
Position: hg19 chr21:30,302,770-30,365,264 Size: 62,495 Coding Exon Count: 30
Data last updated at UCSC: 2013-06-14
Sequence and Links to Tools and Databases
Comments and Description Text from UniProtKB
ID: J3KPL4_HUMAN
DESCRIPTION: SubName: Full=E3 ubiquitin-protein ligase listerin;
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.
Primer design for this transcript
Comparative Toxicogenomics Database (CTD)
Common Gene Haplotype Alleles
Press "+" in the title bar above to open this section.
RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
Microarray Expression Data
Press "+" in the title bar above to open this section.
mRNA Secondary Structure of 3' and 5' UTRs
The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.
Protein Domain and Structure Information
InterPro Domains: Graphical view of domain structure IPR011989 - ARM-like
IPR016024 - ARM-type_fold
IPR001841 - Znf_RING
IPR013083 - Znf_RING/FYVE/PHD
Pfam Domains: PF13639 - Ring finger domain
SCOP Domains: 48371 - ARM repeat
57850 - RING/U-box
ModBase Predicted Comparative 3D Structure on J3KPL4
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.
Orthologous Genes in Other Species
Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
Descriptions from all associated GenBank mRNAs
BC045726 - Homo sapiens cDNA clone IMAGE:4813307.AB018257 - Homo sapiens mRNA for KIAA0714 protein, partial cds.BC150284 - Homo sapiens ring finger protein 160, mRNA (cDNA clone MGC:166904 IMAGE:8860138), complete cds.JD201166 - Sequence 182190 from Patent EP1572962.JD502011 - Sequence 483035 from Patent EP1572962.JD420038 - Sequence 401062 from Patent EP1572962.JD071446 - Sequence 52470 from Patent EP1572962.JD279895 - Sequence 260919 from Patent EP1572962.BC140790 - Homo sapiens ring finger protein 160, mRNA (cDNA clone MGC:176467 IMAGE:9021658), complete cds.JD314667 - Sequence 295691 from Patent EP1572962.JD502268 - Sequence 483292 from Patent EP1572962.JD069044 - Sequence 50068 from Patent EP1572962.JD359320 - Sequence 340344 from Patent EP1572962.JD206028 - Sequence 187052 from Patent EP1572962.JD305712 - Sequence 286736 from Patent EP1572962.JD378389 - Sequence 359413 from Patent EP1572962.JD172457 - Sequence 153481 from Patent EP1572962.JD036431 - Sequence 17455 from Patent EP1572962.JD233159 - Sequence 214183 from Patent EP1572962.JD110827 - Sequence 91851 from Patent EP1572962.KJ904711 - Synthetic construct Homo sapiens clone ccsbBroadEn_14105 LTN1 gene, encodes complete protein.AB384515 - Synthetic construct DNA, clone: pF1KA0714, Homo sapiens ZNF294 gene for zinc finger protein 294, complete cds, without stop codon, in Flexi system.BC031633 - Homo sapiens cDNA clone IMAGE:5172245, containing frame-shift errors.AK001915 - Homo sapiens cDNA FLJ11053 fis, clone PLACE1004664.JD438782 - Sequence 419806 from Patent EP1572962.JD410793 - Sequence 391817 from Patent EP1572962.JD323512 - Sequence 304536 from Patent EP1572962.JD303052 - Sequence 284076 from Patent EP1572962.BC007525 - Homo sapiens zinc finger protein 294, mRNA (cDNA clone IMAGE:3533615), partial cds.AK023499 - Homo sapiens cDNA FLJ13437 fis, clone PLACE1002625.JD189963 - Sequence 170987 from Patent EP1572962.JD047281 - Sequence 28305 from Patent EP1572962.AF161350 - Homo sapiens HSPC087 mRNA, partial cds.BC029371 - Homo sapiens ring finger protein 160, mRNA (cDNA clone IMAGE:4048005), partial cds.AB621822 - Homo sapiens LTN1 mRNA for E3 ubiquitin-protein ligase listerin, partial cds, clone: HP08500-RBd56F02.JD225063 - Sequence 206087 from Patent EP1572962.JD276364 - Sequence 257388 from Patent EP1572962.JD477647 - Sequence 458671 from Patent EP1572962.JD342763 - Sequence 323787 from Patent EP1572962.JD224226 - Sequence 205250 from Patent EP1572962.
Other Names for This Gene
Alternate Gene Symbols: J3KPL4, J3KPL4_HUMAN, NM_015565, NP_056380UCSC ID: uc002ymr.2RefSeq Accession: NM_015565
Protein: J3KPL4
CCDS: CCDS33527.2
Gene Model Information
category:
coding
nonsense-mediated-decay:
no
RNA accession:
NM_015565.2
exon count:
30 CDS single in 3' UTR:
no
RNA size:
7756
ORF size:
5439 CDS single in intron:
no
Alignment % ID:
100.00
txCdsPredict score:
11077.00 frame shift in genome:
no
% Coverage:
100.00
has start codon:
yes
stop codon in genome:
no
# of Alignments:
1
has end codon:
yes
retained intron:
no
# AT/AC introns
0
selenocysteine:
no
end bleed into intron:
0 # strange splices:
0
Click here
for a detailed description of the fields of the table above.
Methods, Credits, and Use Restrictions
Click here
for details on how this gene model was made and data restrictions if any.