Protobothrops flavoviridis is a species of venomous pit viper endemic to the Ryukyu Islands of Japan. No subspecies are currently recognized. Local common names include habu,Gumprecht A, Tillack F, Orlov NL, Captain A, Ryabov S. 2004. Asian Pitvipers. GeitjeBooks. Berlin. 1st Edition. 368 pp. . Okinawa habu,U.S. Navy. 1991. Poisonous Snakes of the World. US Govt. New York: Dover Publications Inc. 203 pp. . and Kume Shima habu.Mehrtens JM. 1987. Living Snakes of the World in Color. New York: Sterling Publishers. 480 pp. .
No narrative description available for this taxon yet.
Compounds documented for Protobothrops flavoviridis across natural-product and food-composition databases — not just the ~150 nutrients on a classic label ("nutritional dark matter").
A DNA barcode is a short, standardised stretch of genes that works like a fingerprint — enough to tell one species from another. Below is the molecular trace Protobothrops flavoviridis has left across the world's sequence archives.
At a glance
DNA specimens35
BINs2
Marker genes1
eDNA detections20
Countries1
The DNA barcodethe species' typical barcode, built from every sequenced specimen
COI-5P657 bp consensus35 specimens
ACGT
▸ drag or hover over the strip to read any position — letter and how much it varies
Violet ticks below the strip = positions where individuals differ; flat = the species' unchanging signature. 93% of positions are identical in every specimen.
Where individuals differ — all 46 variable positions, in barcode order
Each circle is a barcode variant; bigger = more specimens, colour = region. Lines join the most similar variants and the tick marks count the mutations between them — a tight cluster is one “dialect”, a long line a more divergent lineage. Click a circle to list its actual specimens.
Diversity (π)3.3%
Haplotypes8
BINs2
Most divergent pair6.4%
Asia
Closest relatives by DNA barcode
The species whose COI barcode is most similar to this one — a quick “who is this most like”. The percentage is how much the barcode differs; it approximates, but is not, the full evolutionary tree.
★ the standard DNA barcode for this group — the short region actually read to tell this species apart. The rest are extra genes sequenced along the way.
★COI-5P
animal barcode
Organelle genome
Besides the big genome in the nucleus, cells carry a small, circular loop of DNA inside the cell's energy factories — the mitochondria. It is inherited almost only from the mother and is a leftover from ancient bacteria that moved into the cell. The mitochondrial markers above (ND*, COX, CYTB…) are read from exactly this loop. Outer ring = one strand, inner ring = the other.
▸ Tap any coloured segment — or a gene chip — to see what it is
◖ violet arc = the COI-5P barcode — the ~650 bp read used to ID this species
Pick a coloured segment on the ring — or a gene chip — to read what that gene does.
protein-codingrRNAtRNA
06Genome at a glanceGoaT · NCBI
The complete instruction manualProtobothrops flavoviridis carries — its genome. We read it from three angles — how big it is, how the DNA is packed into chromosomes, and how completely it has been sequenced — and explain how to read each value as you go.
Genome sizehow big the whole instruction manual is
Genome size≈1 413 200 976 bp assembly estimate
Measured in base pairs (bp) — the individual letters of DNA (human ≈ 3.2 Gb, a bacterium a few million). The chart places this genome on a logarithmic scale — each step to the right is ten times bigger — among reference organisms. Across species a bigger genome loosely tracks with larger cells, slower growth and lower-energy lifestyles (powered flight favours small genomes) — yet it does not imply more genes or a more advanced organism (the long-standing C-value paradox).
BACTERIUM Carsonella ruddii0.00016 Gb
FUNGUS0.04 Gb
INSECT0.25 Gb
THIS GENOME Protobothrops flavoviridis1.41 Gb
HUMAN3.2 Gb
WHEAT17 Gb
FERN Tmesipteris160.45 Gb
Sequencing statusassembly quality — how far to trust these numbers
Assembly level tells you how finished the sequence is — from fragmented contigs, through scaffolds, up to a full chromosome-level assembly. BUSCO % estimates completeness: the share of genes expected to be present that were actually found. These describe the data quality, not the organism.
Assembly levelScaffold
Completeness89.4% BUSCO
07Deep time~2.23 Ma lineage
How far back this lineage goes — and how we know. Everything here is measured in Ma, short for “mega-annum”: millions of years ago. The chart reads left to right like a calendar of the Earth, from the deep past on the left to today at the right edgetop to bottom like a core drilled through the Earth, from the deep past at the top down to today at the bottom.
At a glance
DNA clock origin2.23 Ma TimeTree
When this lineage existed
How to read this: the coloured strip along the bottomdown the left is the geological calendar — the standard epochs (Pliocene, Pleistocene…) every museum uses, shown so you can see which chapter of Earth's history this lineage lived in. This lineage is a young one, so the strip is zoomed in to epochs — the finer subdivisions inside a period. The orange marker is the DNA clock: DNA accumulates mutations at a roughly steady rate, so comparing this species' DNA with its relatives estimates when the lineage split off — independently of any fossil.
DNA clock origin
08Occurrence & distribution
Record type161 records
Wild obs. + sensor110
Museum / vouchered51
Origin
Native22
Range
Area of Occupancy AOO392 km²
Wildobservation + sensor
Human sightings and records, or camera-trap / sensor detections — someone (or a device) saw or captured the species in the wild.
Coordinate accuracy50% within 1 km
≤100 m 39≤1 km 15≤10 km 21>10 km 34
109 georeferenced · 1 without coordinates
Open the mapobservation + sensor110
Museum / Voucheredphysical evidence
Backed by a physical specimen — a herbarium sheet, sample or voucher held in a collection. “Vouchered” means supported by material evidence, not just an observation.
Coordinate accuracy9% within 1 km
≤100 m 2≤1 km 1≤10 km 8>10 km 22
33 georeferenced · 18 without coordinates
Open the institutions mapphysical evidence51
Wildobservation + sensor
Human sightings and records, or camera-trap / sensor detections — someone (or a device) saw or captured the species in the wild.
10Collections & institutions
Holding institutions4 of 6 geolocated
Institutions and collections holding physical, vouchered specimens of this species — click a row to fly to it on the map.
Institution
Specimens
Los Angeles, US
17
Cambridge, US
14
CASlocation not on record
8
Chongqing Museumlocation not on record
5
Ann Arbor, US
5
Wuzhou, CN
2
6 institutions · 51 of 51 vouchered records shown
09Environmental DNA20 detections
Where the DNA of Protobothrops flavoviridis was picked up in samples of water, soil or air — nobody saw the organism, only its DNA left behind. A trace is a clue that the species was near, not a confirmed sighting.
Signal
Detections DNA found20
Studies independent surveys1
Countries1
Signal confidence: weakweighed across independent studies, places & mapped detections
Where its DNA was found
0 of 20 detections have coordinates
Open the map1 country0
How strong is each trace?
DNA read depthRead counts were not reported for this species — the map shows presence only, not how strong each trace was.
Modelled climatemodelled
−15°Ctemperature across detection sites+40°C
Temperature median7.40 °C 7.40–7.40
Seasonal swing summer↔winter25.4 °C
Max temp (day)9.60 °C
Min temp (night)3.00 °C
Precipitation344 mm/mo
Air humidity64.9 %
Moisture balance263 mm/mo
Vapour deficit428 Pa
Wind speed2.90 m/s
Cloud cover44.6 %
CHELSA 1981–2010, ~9 km grid, at location & month of 20 detection points · median with p10–p90 · reflects where sampling happened, not only the true niche
How to read this: each dot is one detection of this species' DNA in an environmental sample. The confidence meter weighs how many independent studies and places back up the signal — one detection in one study is a hint; many across several studies is solid. Records dated before 2008 (when eDNA methods began) are treated as likely mislabeled and left off the map.
WikipediaWikimedia Foundation11 languages↗
BioWikiNetmultilingual Wikipediamultilingual↗
GBIFGlobal Biodiversity Information Facility161 records↗
ENAEuropean Nucleotide Archive · EMBL-EBI20 eDNA detections↗
BOLD SystemsCentre for Biodiversity Genomics35 specimens↗
LOTUSNatural Products (Wikidata)compounds↗
NPASSNat. Product Activity & Species Sourcecompounds↗
Open Tree of LifeOpenTreephylogeny backbone↗
GoaTGenomes on a Tree · Sangergenome & karyotype↗
NCBIUS National Library of Medicinegenome & karyotype↗
WikidataWikimedia Foundationstructured facts↗
GLoBIGlobal Biotic Interactionsbiotic interactions↗