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JL Cross 29

RSP 11530

Grower: Kevin McKernan

General Information

Accession Date
June 17, 2020
Reported Plant Sex
not reported
DNA Extracted From
Unknown

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 I

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: 1.22%
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: 0.0913
male female RSP11530

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)

Gene HGVS.c HGVS.p Annotation Annotation Impact Contig Contig Pos Ref/Alt Var Freq
THCAS c.998C>G p.Pro333Arg missense variant moderate contig741 4416830

IGV: Start, Jump

G/C
NGS:
0.182
C90:
0.000

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.1117A>G p.Ile373Val missense variant moderate contig700 1950521

IGV: Start, Jump

T/C
NGS:
0.807
C90:
0.981
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.496A>G p.Lys166Glu missense variant moderate contig700 2721177

IGV: Start, Jump

T/C
NGS:
0.651
C90:
0.684
PKSG-4b

UniProt

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

IGV: Start, Jump

CA/C
NGS:
0.792
C90:
0.761
PKSG-4b

UniProt

c.485A>G p.Lys162Arg missense variant moderate contig700 2721188

IGV: Start, Jump

T/C
NGS:
0.643
C90:
0.301
PKSG-4b

UniProt

c.431T>G p.Val144Gly missense variant moderate contig700 2721242

IGV: Start, Jump

A/C
NGS:
0.575
C90:
0.679
PKSG-4b

UniProt

c.419A>G p.Asp140Gly missense variant moderate contig700 2721254

IGV: Start, Jump

T/C
NGS:
0.430
C90:
0.440
aPT4

UniProt

c.235_236delGT p.Val79fs frameshift variant high contig121 2829030

IGV: Start, Jump

ATG/A
NGS:
0.417
C90:
0.000
aPT4

UniProt

c.238delT p.Ser80fs frameshift variant high contig121 2829034

IGV: Start, Jump

AT/A
NGS:
0.421
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.95_97delGTT p.Cys32del disruptive inframe deletion moderate contig121 2835800

IGV: Start, Jump

ATGT/A
NGS:
0.118
C90:
0.311
aPT1

UniProt

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

IGV: Start, Jump

A/G
NGS:
0.579
C90:
0.761
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 0.075 0.150 0.225 0.300
closely related moderately related distantly related
  1. 0.240 White Label 2 (RSP11337)
  2. 0.246 Doug s Varin (RSP11243)
  3. 0.247 Durban Poison #1 (RSP11013)
  4. 0.248 Strawberry Cough (RSP11356)
  5. 0.251 Serious Happiness (RSP10763)
  6. 0.255 Blue Dream (RSP11006)
  7. 0.261 Electra (RSP11366)
  8. 0.262 Sunday Driver (RSP11071)
  9. 0.262 UnObtanium (RSP11611)
  10. 0.264 JL Cross 14 (RSP11515)
  11. 0.264 Strawberry (RSP12095)
  12. 0.265 Green Crack (RSP12099)
  13. 0.266 Liberty Haze (RSP11000)
  14. 0.267 Durban Poison #1 (RSP10996)
  15. 0.268 Suver Haze (RSP11364)
  16. 0.269 Whitey (RSP11363)
  17. 0.269 Square Wave (RSP11344)
  18. 0.270 Blue Dream (RSP11010)
  19. 0.272 Blue Dream (RSP11017)
  20. 0.272 Blueberry Cheesecake (RSP10684)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
closely related moderately related distantly related
  1. 0.464 Cherry Blossom (RSP11323)
  2. 0.422 Cherry Blossom (RSP11318)
  3. 0.420 Chem 91 (RSP11185)
  4. 0.418 JL 4th Gen 5 (RSP11199)
  5. 0.412 Cherry Blossom (RSP11306)
  6. 0.410 80E (RSP11213)
  7. 0.408 JL yellow (RSP11075)
  8. 0.407 Sour Raspberry (RSP10551)
  9. 0.404 Cherry Blossom (RSP11325)
  10. 0.403 JL 4th Gen 4 (RSP11198)
  11. 0.403 B52 (SRR14708255)
  12. 0.400 Kush Hemp E1 (RSP11128)
  13. 0.400 JL 4th Gen 2 (RSP11194)
  14. 0.399 JL 4th Gen 6 (RSP11200)
  15. 0.399 Blueberry Cheesecake (RSP10680)
  16. 0.398 GMO x Garlic Breath (RSP12507)
  17. 0.398 Tanao Sri -46- (RSP11486)
  18. 0.397 Alpine Rocket (SRR14708266)
  19. 0.394 IUP3 (SRR14708256)
  20. 0.394 GG4 (RSP11978)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8349159
Overlapping SNPs:
66
Concordance:
43

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495303
Overlapping SNPs:
3
Concordance:
3

Blockchain Registration Information

SHASUM Hash
1b144c9f7b741c5e87a65bf7cf0e8e03d3b0ed5fabb1cb15cc0dfa028d992c98
QR code for RSP11530

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