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JL_x_NSPM1_3

RSP 11481

Grower: Kevin McKernan

General Information

Accession Date
May 7, 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: 0.83%
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: 0.0359
male female RSP11481

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.774G>A p.Met258Ile missense variant moderate contig700 1950864

IGV: Start, Jump

C/T
NGS:
0.366
C90:
0.947
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
PKSG-4b

UniProt

c.353_354insCC p.Gly119fs frameshift variant high contig700 2721319

IGV: Start, Jump

T/TGG
NGS:
0.175
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
DXR-2

UniProt

c.431C>G p.Ala144Gly missense variant moderate contig380 287760

IGV: Start, Jump

G/C
NGS:
0.182
C90:
0.550
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.153A>C p.Lys51Asn missense variant moderate contig121 2828809

IGV: Start, Jump

A/C
NGS:
0.375
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. 0.055 JL Tent 4 (RSP11491)
  2. 0.060 JL Tent 1 yellow stake (RSP11488)
  3. 0.065 JL Tent 2 (RSP11489)
  4. 0.069 JL Cross 28 (RSP11529)
  5. 0.072 JL Tent 3 (RSP11490)
  6. 0.080 JL X NSPM1 33 (RSP11477)
  7. 0.084 JL Cross 23 (RSP11524)
  8. 0.089 JL Cross 15 (RSP11516)
  9. 0.093 JL X NSPM1 6 (RSP11468)
  10. 0.096 JL Cross 17 (RSP11518)
  11. 0.097 JL X NSPM1 30 (RSP11476)
  12. 0.100 JL X NSPM1 14 (RSP11473)
  13. 0.101 JL X NSPM1 7 (RSP11469)
  14. 0.103 JL X NSPM1 21 (RSP11474)
  15. 0.103 JL Cross 9 (RSP11510)
  16. 0.106 JL Cross 22 (RSP11523)
  17. 0.110 JL Cross 18 (RSP11519)
  18. 0.111 JL Cross 19 (RSP11520)
  19. 0.113 JL Cross 26 (RSP11527)
  20. 0.114 JL x NSPM1 1 5 (RSP11479)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
closely related moderately related distantly related
  1. 0.465 80E (RSP11213)
  2. 0.445 80E (RSP11212)
  3. 0.432 80E (RSP11211)
  4. 0.428 Cbot-2019-005 (RSP11133)
  5. 0.413 Northern Lights (RSP11501)
  6. 0.410 CS (RSP11208)
  7. 0.408 Tanao Sri -46- (RSP11486)
  8. 0.399 R1in136 (SRR14708226)
  9. 0.394 Tanao Sri-white -80- (RSP11621)
  10. 0.394 Carmaleonte (RSP11207)
  11. 0.394 IUP3 (SRR14708256)
  12. 0.392 Northern Skunk (RSP11456)
  13. 0.391 XBL1 (SRR14708207)
  14. 0.390 Ruderalis Indica (SRR14708267)
  15. 0.389 Kush Hemp E1 (RSP11128)
  16. 0.389 IUP2 (SRR14708257)
  17. 0.388 Carmagnola (RSP10980)
  18. 0.388 R1in136 (SRR14708237)
  19. 0.385 R1in136 (SRR14708227)
  20. 0.385 R3in134 (SRR14708218)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4448783
Overlapping SNPs:
59
Concordance:
40

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495303
Overlapping SNPs:
2
Concordance:
2

Blockchain Registration Information

Transaction ID
96bb63ab6a8aebbda01d3bff8196166b35d4559273927c921ddf49c78b1e81f8
Stamping Certificate
Download PDF (39.7 KB)
SHASUM Hash
c1c18b30c5eb2ba0545ef753d73e969bd2ee4fc6604f4c186a0efa03c41e895c
QR code for RSP11481

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