JL Cross 2

RSP 11503

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: 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

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: 0.87%
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: 0.0336
male female RSP11503

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.1152T>A p.Asn384Lys missense variant moderate contig700 1950486

IGV: Start, Jump

A/T
NGS:
0.715
C90:
0.895
PKSG-2b

UniProt

c.1132C>G p.Leu378Val missense variant moderate contig700 1950506

IGV: Start, Jump

G/C
NGS:
0.717
C90:
0.000
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.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.352_355delACAG p.Thr118fs frameshift variant high contig700 2721317

IGV: Start, Jump

CCTGT/C
NGS:
0.529
C90:
0.000
PKSG-4b

UniProt

c.323A>G p.Glu108Gly missense variant moderate contig700 2721350

IGV: Start, Jump

T/C
NGS:
0.469
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
aPT4

UniProt

c.97T>C p.Tyr33His missense variant moderate contig121 2828753

IGV: Start, Jump

T/C
NGS:
0.439
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
clone distance sibling distance more distant
  1. 0.061 JL x NSPM1 1 (RSP11478)
  2. 0.078 JL X NSPM1 6 (RSP11468)
  3. 0.092 JL Cross 24 (RSP11525)
  4. 0.095 JL Tent 1 yellow stake (RSP11488)
  5. 0.096 JL Cross 9 (RSP11510)
  6. 0.097 JL Cross 27 (RSP11528)
  7. 0.103 JL Cross 19 (RSP11520)
  8. 0.103 JL Cross 21 (RSP11522)
  9. 0.112 JL Cross 28 (RSP11529)
  10. 0.113 JL Tent 2 (RSP11489)
  11. 0.115 JL x NSPM1 3 (RSP11481)
  12. 0.115 JL X NSPM1 14 (RSP11473)
  13. 0.115 JL X NSPM1 11 (RSP11471)
  14. 0.117 JL Cross 15 (RSP11516)
  15. 0.117 JL Cross 18 (RSP11519)
  16. 0.120 JL Cross 26 (RSP11527)
  17. 0.121 JL X NSPM1 30 (RSP11476)
  18. 0.122 JL Cross 22 (RSP11523)
  19. 0.124 JL Tent 4 (RSP11491)
  20. 0.125 JL X NSPM1 7 (RSP11469)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.464 Cbot-2019-005 (RSP11133)
  2. 0.443 80E (RSP11213)
  3. 0.436 Northern Lights (RSP11501)
  4. 0.435 AVIDEKEL 2 0 (RSP11174)
  5. 0.434 Northern Skunk (RSP11456)
  6. 0.430 CS (RSP11208)
  7. 0.427 80E (RSP11212)
  8. 0.417 Chem 91 (RSP11185)
  9. 0.416 BagSeed (RSP12627)
  10. 0.415 Danny Noonan (RSP11070)
  11. 0.415 Carmaleonte (RSP11207)
  12. 0.414 RKM-2018-002 (RSP11093)
  13. 0.414 80E (RSP11211)
  14. 0.413 Tanao Sri-white -80- (RSP11621)
  15. 0.411 Kush Hemp E1 (RSP11128)
  16. 0.409 Cherry Blossom (RSP11301)
  17. 0.408 Tanao Sri -46- (RSP11486)
  18. 0.405 R1in136 (SRR14708226)
  19. 0.404 RKM-2018-012 (RSP11103)
  20. 0.404 Arcata Trainwreck (RSP11176)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8349115
Overlapping SNPs:
71
Concordance:
47

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495164
Overlapping SNPs:
3
Concordance:
3

Blockchain Registration Information

SHASUM Hash
e4598b9b8a1f0fb246450e5ae809ae5198303736fef27ac37e5b2746ebe2d152
QR code for RSP11503

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