Advanced Strain Search

JL_X_NSPM1_22

RSP 11475

Grower: Kevin McKernan

General Information

Accession Date
May 7, 2020
Reported Plant Sex
Male
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: 0.93%
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: 0.0853
male female RSP11475

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

IGV: Start, Jump

G/C
NGS:
0.182
C90:
0.550
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 0.033 0.067 0.100 0.133
closely related moderately related distantly related
  1. 0.046 JL X NSPM1 30 (RSP11476)
  2. 0.074 JL X NSPM1 5 (RSP11467)
  3. 0.075 JL Cross 22 (RSP11523)
  4. 0.091 JL Cross 17 (RSP11518)
  5. 0.093 JL X NSPM1 33 (RSP11477)
  6. 0.098 JL x NSPM1 1 5 (RSP11479)
  7. 0.101 JL x NSPM1 1 (RSP11478)
  8. 0.102 JL X NSPM1 21 (RSP11474)
  9. 0.105 JL X NSPM1 14 (RSP11473)
  10. 0.108 JL Tent 1 yellow stake (RSP11488)
  11. 0.109 JL X NSPM1 7 (RSP11469)
  12. 0.117 JL Cross 18 (RSP11519)
  13. 0.118 JL Cross 9 (RSP11510)
  14. 0.118 JL Cross 23 (RSP11524)
  15. 0.118 JL x NSPM1 3 (RSP11481)
  16. 0.118 JL X NSPM1 6 (RSP11468)
  17. 0.120 JL Cross 19 (RSP11520)
  18. 0.124 JL Cross 27 (RSP11528)
  19. 0.124 JL Tent 2 (RSP11489)
  20. 0.125 JL x NSPM1 2 (RSP11480)

Most genetically distant strains (All Samples)

0 0.125 0.250 0.375 0.500
closely related moderately related distantly related
  1. 0.469 80E (RSP11213)
  2. 0.442 80E (RSP11212)
  3. 0.438 80E (RSP11211)
  4. 0.426 Cbot-2019-005 (RSP11133)
  5. 0.422 IUP3 (SRR14708256)
  6. 0.420 Northern Lights (RSP11501)
  7. 0.419 R1in136 (SRR14708226)
  8. 0.416 Ruderalis Indica (SRR14708267)
  9. 0.415 CS (RSP11208)
  10. 0.414 Carmagnola (RSP11202)
  11. 0.413 R1in136 (SRR14708227)
  12. 0.409 XBL1 (SRR14708207)
  13. 0.408 Tanao Sri-white -80- (RSP11621)
  14. 0.408 Feral (RSP11205)
  15. 0.406 Carmaleonte (RSP11207)
  16. 0.406 Northern Skunk (RSP11456)
  17. 0.406 R1in136 (SRR14708237)
  18. 0.402 Arcata Trainwreck (RSP11176)
  19. 0.402 IUP2 (SRR14708257)
  20. 0.402 Cherry Blossom (RSP11323)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8346680
Overlapping SNPs:
64
Concordance:
40

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495303
Overlapping SNPs:
2
Concordance:
2

Blockchain Registration Information

Transaction ID
bdeabd9b688cb1b9a48732d67474913ee29e715aa403bdca4d7b4bfe327e163f
Stamping Certificate
Download PDF (39.9 KB)
SHASUM Hash
ecca48ae1b5d0bdfba90bcd999f635e25de7fbcd455a02f7abe40f9db2eac9a5
QR code for RSP11475

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