Ensembl mobile site help

Things to know when navigating the Ensembl mobile site

Search box

Use the search box at the top right of all Ensembl views to search for a gene, phenotype, sequence variant, and more.

Top navigation

Touch MENU button to open the main menu and touch again to close.

Touch MENU

Left hand side menu

Touch the left menu icon () or swipe right to open the side menu and touch anywhere outside the menu or touch the cross icon or swipe left to close.

The ? icon

Touch the icon to get help

And don't forget to send us your comments using the feedback link inside the main menu.

EnsemblEnsembl Home

Tiger assembly and gene annotation

Assembly

The PanTig1.0 assembly was submitted by Personal Genomics Institute on 2013/09/06 . The assembly is on the Scaffold level, consisting of 157,032 assembled into 1,479 scaffolds. The N50 size is the length such that 50% of the assembled genome lies in blocks of the N50 size or longer. The N50 length for the contigs is 30,032 while the scaffold N50 is 8,860,407.

The genome assembly represented here corresponds to GenBank Assembly ID GCA_000464555.1

Gene annotation

The Siberian tiger (Panthera tigris tigris), also called Amur tiger, is a tiger population inhabiting mainly the Sikhote Alin mountain region in southwest Primorye Province in the Russian Far East. The Siberian tiger once ranged throughout Korea, Northeast China, Russian Far East, and eastern Mongolia. In 2005, there were 331–393 adult and subadult Siberian tigers in this region, with a breeding adult population of about 250 individuals. The population had been stable for more than a decade due to intensive conservation efforts, but partial surveys conducted after 2005 indicate that the Russian tiger population was declining. An initial census held in 2015 indicated that the Siberian tiger population had increased to 480–540 individuals in the Russian Far East, including 100 cubs. This was followed up by a more detailed census which revealed there was a total population of 562 wild Siberian tigers in Russia.

The gene annotation process was carried out using a combination of protein-to-genome alignments, annotation mapping from a suitable reference species and RNA-seq alignments (where RNA-seq data with appropriate meta data were publicly available). For each candidate gene region, a selection process was applied to choose the most appropriate set of transcripts based on evolutionary distance, experimental evidence for the source data and quality of the alignments. Small ncRNAs were obtained using a combination of BLAST and Infernal/RNAfold. Pseudogenes were calculated by looking at genes with a large percentage of non-biological introns (introns of <10bp), where the gene was covered in repeats, or where the gene was single exon and evidence of a functional multi-exon paralog was found elsewhere in the genome. lincRNAs were generated via RNA-seq data where no evidence of protein homology or protein domains could be found in the transcript.

In accordance with the Fort Lauderdale Agreement , please check the publication status of the genome/assembly before publishing any genome-wide analyses using these data.

More information

General information about this species can be found in Wikipedia.

Statistics

Summary

AssemblyPanTig1.0, INSDC Assembly GCA_000464555.1, Sep 2013
Base Pairs2,332,832,693
Golden Path Length2,391,065,193
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedDec 2017
Genebuild releasedJun 2018
Genebuild last updated/patchedJun 2018
Database version94.1

Gene counts

Coding genes17,544
Non coding genes3,602
Small non coding genes3,035
Long non coding genes7
Misc non coding genes560
Pseudogenes973
Gene transcripts31,423

Other

Genscan gene predictions44,276

About this species