Advanced Strain Search

VIR 483

SRR 14708238

Grower: Lanzhou University, Guangpeng Ren

General Information

Sample Name
UTT3
Accession Date
May 31, 2021
Reported Plant Sex
not reported

The strain rarity visualization shows how distant the strain is from the other cultivars in the Kannapedia database. The y-axis represents genetic distance, getting farther as you go up. The width of the visualization at any position along the y-axis shows how many strains there are in the database at that genetic distance. So, a common strain will have a more bottom-heavy shape, while uncommon and rare cultivars will have a visualization that is generally shifted towards the top.

Rarity: Rare
Most Distant Most Similar

Chemical Information

Cannabinoid and terpenoid information provided by the grower.

Cannabinoids

No information provided.

Terpenoids

No information provided.

Genetic Information

Plant Type
Type III

File Downloads

The bell curve in the heterozygosity visualization shows the distribution of heterozygosity levels for cannabis cultivars in the Kannapedia database. The green line shows where this particular strain fits within the distribution. Heterozygosity is associated with heterosis (aka hybrid vigor) but also leads to the production of more variable offspring. When plants have two genetically different parents, heterozygosity levels will be higher than if it has been inbred or backcrossed repeatedly.

Heterozygosity: 1.34%
Least Heterozygous Most Heterozygous

The ratio of reads mapped to Y-contigs to reads mapped to the whole Cannabis genome (Y-ratios) has been demonstrated to be strongly correlated with plant sex typing. This plot shows the distribution of Y-ratios for all samples in our database which were sequenced with the same method (panel or WGS) as this sample and where this sample falls in the distribution.

Y-Ratio Distribution: 0.0218
male female SRR14708238

This chart represents the Illumina sequence coverage over the Bt/Bd allele. These are the three regions in the cannabis genome that impact THCA, CBDA, CBGA production. Coverage over the Active CBDAS gene is highly correlated with Type II and Type III plants as described by Etienne de Meijer. Coverage over the THCA gene is highly correlated with Type I and Type II plants but is anti-correlated with Type III plants. Type I plants require coverage over the inactive CBDA loci and no coverage over the Active CBDA gene. Lack of coverage over the Active CBDA and Active THCA allele are presumed to be Type IV plants (CBGA dominant). While deletions of entire THCAS and CBDAS genes are the most common Bt:Bd alleles observed, it is possible to have plants with these genes where functional expression of the enzyme is disrupted by deactivating point mutations (Kojoma et al. 2006).

Bt/Bd Allele Coverage

This chart represents the Illumina sequence coverage over the CBCA synthase gene.

CBCAS Coverage

Variants (THCAS, CBDAS, and CBCAS)

No variants to report

Variants (Select Genes of Interest)
PHL-2 c.1096G>A p.Ala366Thr missense variant moderate contig2621 340374

IGV: Start, Jump

G/A
NGS:
0.090
C90:
0.531
PHL-2 c.2783G>A p.Ser928Asn missense variant moderate contig2621 342826

IGV: Start, Jump

G/A
NGS:
0.107
C90:
0.890
PKSG-4a

UniProt

c.49_50insTGG p.Glu16_Gly17insVal disruptive inframe insertion moderate contig700 1936744

IGV: Start, Jump

A/AGGT
NGS:
0.013
C90:
0.000
PKSG-4a

UniProt

c.1191_1193delTTA p.Tyr398del disruptive inframe deletion moderate contig700 1938600

IGV: Start, Jump

AATT/A
NGS:
0.167
C90:
0.000
DXR-2

UniProt

c.1319T>C p.Ile440Thr missense variant moderate contig380 285250

IGV: Start, Jump

A/G
NGS:
0.480
C90:
0.000
aPT1

UniProt

c.670T>A p.Ser224Thr missense variant moderate contig121 2840278

IGV: Start, Jump

T/A
NGS:
0.077
C90:
0.000
aPT1

UniProt

c.864C>G p.Asn288Lys missense variant moderate contig121 2842407

IGV: Start, Jump

C/G
NGS:
0.075
C90:
0.062
EMF1-1

UniProt

c.242A>G p.Lys81Arg missense variant moderate contig883 269731

IGV: Start, Jump

A/G
NGS:
0.022
C90:
0.053
aPT4

UniProt

c.198A>C p.Lys66Asn missense variant moderate contig121 2828854

IGV: Start, Jump

A/C
NGS:
0.044
C90:
0.000
FLD

UniProt

c.2686G>A p.Ala896Thr missense variant moderate contig1450 2044848

IGV: Start, Jump

C/T
NGS:
0.035
C90:
0.225
FLD

UniProt

c.2681T>C p.Ile894Thr missense variant moderate contig1450 2044853

IGV: Start, Jump

A/G
NGS:
0.020
C90:
0.144
GGR

UniProt

c.456T>A p.His152Gln missense variant moderate contig2282 549448

IGV: Start, Jump

T/A
NGS:
0.068
C90:
0.000
GGR

UniProt

c.460G>A p.Asp154Asn missense variant moderate contig2282 549452

IGV: Start, Jump

G/A
NGS:
0.070
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.058 0.117 0.175 0.233
closely related moderately related distantly related
  1. 0.205 VIR 483 (SRR14708240)
  2. 0.207 VIR 483 (SRR14708239)
  3. 0.211 Carmagnola (RSP10979)
  4. 0.214 VIR 493 - Glukhovskaja 10 Zheltostebel naja (SRR14708230)
  5. 0.215 Carmagnola (RSP10976)
  6. 0.215 Carmagnola (RSP10982)
  7. 0.219 Carmagnola USO 31 (RSP11204)
  8. 0.219 Tisza (RSP11044)
  9. 0.220 Ivory (RSP10668)
  10. 0.220 Santhica27 (RSP11047)
  11. 0.222 Carmagnola (RSP11039)
  12. 0.222 Santhica27 (RSP10056)
  13. 0.223 Carmagnola (RSP10978)
  14. 0.223 Tisza (RSP11045)
  15. 0.223 Diana (RSP10235)
  16. 0.225 Carmagnola (RSP11202)
  17. 0.226 Tisza (RSP10659)
  18. 0.226 Santhica 27 (RSP10665)
  19. 0.227 Tiborszallasie (RSP11210)
  20. 0.230 VIR 201 (SRR14708232)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
closely related moderately related distantly related
  1. 0.442 Cherry Blossom (RSP11300)
  2. 0.439 Cherry Blossom (RSP11301)
  3. 0.431 AVIDEKEL 2 0 (RSP11174)
  4. 0.429 Cherry Blossom (RSP11318)
  5. 0.427 Chematonic -Cannatonic x Chemdawg- (RSP11394)
  6. 0.426 Northern Skunk (RSP11456)
  7. 0.425 Chem 91 (RSP11185)
  8. 0.425 UP Wendigo (RSP11261)
  9. 0.424 New York City Deisel (RSP11225)
  10. 0.423 Cherry Blossom (RSP11323)
  11. 0.423 Medxotic (RSP11410)
  12. 0.422 Cherry Blossom (RSP11311)
  13. 0.421 Unknown--Cherry Wine---001- (RSP11268)
  14. 0.421 Wilburs Great Adventure (RSP11727)
  15. 0.419 Cherry Blossom (RSP11312)
  16. 0.419 GMO x Garlic Breath (RSP12507)
  17. 0.417 Cherry Blossom (RSP11298)
  18. 0.417 Queen Dream (RSP11278)
  19. 0.415 Banana OG (RSP11498)
  20. 0.414 JL Cross 1 (RSP11502)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4451181
Overlapping SNPs:
6
Concordance:
6

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495242
Overlapping SNPs:
2
Concordance:
2
QR code for SRR14708238

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