Advanced Strain Search

JL_Tent_2

RSP 11489

Grower: Kevin Mckernan

General Information

Accession Date
May 21, 2020
Reported Plant Sex
Female
DNA Extracted From
Stem

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: Common
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 II

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: 0.9%
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: 0.0458
male female RSP11489

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)
PKSG-2a

UniProt

c.67T>A p.Phe23Ile missense variant moderate contig700 1945567

IGV: Start, Jump

A/T
NGS:
0.825
C90:
0.904
PKSG-2a

UniProt

c.31A>T p.Thr11Ser missense variant moderate contig700 1945603

IGV: Start, Jump

T/A
NGS:
0.763
C90:
0.876
PKSG-2b

UniProt

c.995C>T p.Ser332Phe missense variant moderate contig700 1950643

IGV: Start, Jump

G/A
NGS:
0.042
C90:
0.000
PKSG-2b

UniProt

c.31A>T p.Thr11Ser missense variant moderate contig700 1951851

IGV: Start, Jump

T/A
NGS:
0.844
C90:
0.880
PKSG-4b

UniProt

c.535_545delATTGGAGTGGG p.Ile179fs frameshift variant high contig700 2721127

IGV: Start, Jump

CCCCACTCCAAT/C
NGS:
0.105
C90:
0.000
PKSG-4b

UniProt

c.523C>T p.His175Tyr missense variant moderate contig700 2721150

IGV: Start, Jump

G/A
NGS:
0.112
C90:
0.325
PKSG-4b

UniProt

c.489delT p.Phe163fs frameshift variant high contig700 2721183

IGV: Start, Jump

CA/C
NGS:
0.792
C90:
0.761
FAD2-2

UniProt

c.62C>T p.Pro21Leu missense variant moderate contig83 1803307

IGV: Start, Jump

G/A
NGS:
0.042
C90:
0.000
aPT4

UniProt

c.775delT p.Tyr259fs frameshift variant high contig121 2831380

IGV: Start, Jump

AT/A
NGS:
0.224
C90:
0.000
aPT4

UniProt

c.1168T>C p.Tyr390His missense variant moderate contig121 2833503

IGV: Start, Jump

T/C
NGS:
0.546
C90:
0.000
aPT1

UniProt

c.406A>G p.Ile136Val missense variant moderate contig121 2839605

IGV: Start, Jump

A/G
NGS:
0.579
C90:
0.761
aPT1

UniProt

c.629C>T p.Thr210Ile missense variant moderate contig121 2840237

IGV: Start, Jump

C/T
NGS:
0.561
C90:
0.598
HDS-2

UniProt

c.82_93delGTAACCGGAACT p.Val28_Thr31del conservative inframe deletion moderate contig95 1989748

IGV: Start, Jump

CGTAACCGGAACT/C
NGS:
0.805
C90:
0.000
HDS-2

UniProt

c.127T>G p.Ser43Ala missense variant moderate contig95 1989794

IGV: Start, Jump

T/G
NGS:
0.721
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.033 0.067 0.100 0.133
closely related moderately related distantly related
  1. 0.005 JL Tent 3 (RSP11490)
  2. 0.047 JL Cross 28 (RSP11529)
  3. 0.047 JL X NSPM1 7 (RSP11469)
  4. 0.053 JL X NSPM1 14 (RSP11473)
  5. 0.056 JL Cross 18 (RSP11519)
  6. 0.056 JL Cross 21 (RSP11522)
  7. 0.065 JL x NSPM1 3 (RSP11481)
  8. 0.080 JL Cross 9 (RSP11510)
  9. 0.082 JL x NSPM1 1 5 (RSP11479)
  10. 0.083 JL Cross 26 (RSP11527)
  11. 0.087 JL Cross 19 (RSP11520)
  12. 0.087 JL Cross 17 (RSP11518)
  13. 0.090 JL Cross 23 (RSP11524)
  14. 0.096 JL X NSPM1 21 (RSP11474)
  15. 0.096 JL Cross 24 (RSP11525)
  16. 0.100 JL Tent 4 (RSP11491)
  17. 0.100 JL x NSPM1 1 (RSP11478)
  18. 0.102 JL X NSPM1 6 (RSP11468)
  19. 0.108 JL Tent 1 yellow stake (RSP11488)
  20. 0.112 JL Cross 15 (RSP11516)

Most genetically distant strains (All Samples)

0 0.125 0.250 0.375 0.500
closely related moderately related distantly related
  1. 0.470 80E (RSP11213)
  2. 0.457 80E (RSP11212)
  3. 0.448 80E (RSP11211)
  4. 0.444 CS (RSP11208)
  5. 0.430 CS Indica (RSP11658)
  6. 0.430 Carmaleonte (RSP11207)
  7. 0.421 Cherry Blossom (RSP11318)
  8. 0.419 Tanao Sri -46- (RSP11486)
  9. 0.418 Cherry Blossom (RSP11323)
  10. 0.415 Tanao Sri-white -80- (RSP11621)
  11. 0.415 Northern Lights (RSP11501)
  12. 0.414 Cbot-2019-005 (RSP11133)
  13. 0.412 Squirrel Tail -81- (RSP11622)
  14. 0.412 R1in136 (SRR14708226)
  15. 0.411 Feral (RSP10891)
  16. 0.409 Feral (RSP11205)
  17. 0.406 VIR 483 (SRR14708239)
  18. 0.406 Feral (RSP11206)
  19. 0.405 Arcata Trainwreck (RSP11176)
  20. 0.404 RKM-2018-024 (RSP11116)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8346965
Overlapping SNPs:
84
Concordance:
53

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495248
Overlapping SNPs:
4
Concordance:
4

Blockchain Registration Information

Transaction ID
20b3f30fb3803af1da257af821c42914bf4c297735076d44bdb714de2c7abff9
Stamping Certificate
Download PDF (40.1 KB)
SHASUM Hash
52da54351233ea8fd01ab1bb8963a99b1c6e87c7bd41a373d76c9b27463b71ba
QR code for RSP11489

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