Advanced Strain Search

JL_X_NSPM1_30

RSP 11476

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: 0.88%
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: 0.0807
male female RSP11476

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.241G>A p.Val81Met missense variant moderate contig700 1945149

IGV: Start, Jump

C/T
NGS:
0.136
C90:
0.000
PKSG-2a

UniProt

c.240T>G p.Asp80Glu missense variant moderate contig700 1945150

IGV: Start, Jump

A/C
NGS:
0.136
C90:
0.000
PKSG-2a

UniProt

c.230T>C p.Val77Ala missense variant moderate contig700 1945160

IGV: Start, Jump

A/G
NGS:
0.114
C90:
0.000
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.241G>A p.Val81Met missense variant moderate contig700 1951397

IGV: Start, Jump

C/T
NGS:
0.154
C90:
0.000
PKSG-2b

UniProt

c.240T>G p.Asp80Glu missense variant moderate contig700 1951398

IGV: Start, Jump

A/C
NGS:
0.156
C90:
0.000
PKSG-2b

UniProt

c.230T>C p.Val77Ala missense variant moderate contig700 1951408

IGV: Start, Jump

A/G
NGS:
0.134
C90:
0.646
PKSG-2b

UniProt

c.224A>G p.Lys75Arg missense variant moderate contig700 1951414

IGV: Start, Jump

T/C
NGS:
0.151
C90:
0.957
PKSG-2b

UniProt

c.188T>G p.Ile63Ser missense variant moderate contig700 1951450

IGV: Start, Jump

A/C
NGS:
0.118
C90:
0.000
PKSG-2b

UniProt

c.187A>T p.Ile63Phe missense variant moderate contig700 1951451

IGV: Start, Jump

T/A
NGS:
0.116
C90:
0.000
PKSG-2b

UniProt

c.167C>G p.Thr56Ser missense variant moderate contig700 1951471

IGV: Start, Jump

G/C
NGS:
0.103
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
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.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 22 (RSP11475)
  2. 0.071 JL X NSPM1 21 (RSP11474)
  3. 0.076 JL X NSPM1 5 (RSP11467)
  4. 0.081 JL x NSPM1 1 (RSP11478)
  5. 0.082 JL Cross 22 (RSP11523)
  6. 0.086 JL Tent 1 yellow stake (RSP11488)
  7. 0.086 JL Cross 17 (RSP11518)
  8. 0.086 JL X NSPM1 14 (RSP11473)
  9. 0.089 JL Cross 23 (RSP11524)
  10. 0.094 JL X NSPM1 33 (RSP11477)
  11. 0.097 JL Cross 9 (RSP11510)
  12. 0.097 JL x NSPM1 3 (RSP11481)
  13. 0.100 JL Tent 4 (RSP11491)
  14. 0.100 JL X NSPM1 6 (RSP11468)
  15. 0.105 JL Cross 19 (RSP11520)
  16. 0.108 JL Cross 18 (RSP11519)
  17. 0.116 JL X NSPM1 7 (RSP11469)
  18. 0.117 JL Cross 28 (RSP11529)
  19. 0.121 JL Cross 2 (RSP11503)
  20. 0.124 JL Tent 2 (RSP11489)

Most genetically distant strains (All Samples)

0 0.125 0.250 0.375 0.500
closely related moderately related distantly related
  1. 0.484 80E (RSP11213)
  2. 0.462 Cbot-2019-005 (RSP11133)
  3. 0.453 80E (RSP11211)
  4. 0.451 80E (RSP11212)
  5. 0.445 Northern Lights (RSP11501)
  6. 0.435 CS (RSP11208)
  7. 0.429 R1in136 (SRR14708226)
  8. 0.424 Cherry Blossom (RSP11323)
  9. 0.423 Ruderalis Indica (SRR14708267)
  10. 0.421 Carmagnola (RSP11202)
  11. 0.421 Carmaleonte (RSP11207)
  12. 0.420 IUP3 (SRR14708256)
  13. 0.419 XBL1 (SRR14708207)
  14. 0.419 R1in136 (SRR14708237)
  15. 0.418 Kush Hemp E1 (RSP11128)
  16. 0.418 R1in136 (SRR14708227)
  17. 0.417 Carmagnola (RSP10980)
  18. 0.415 Tanao Sri -46- (RSP11486)
  19. 0.415 Arcata Trainwreck (RSP11176)
  20. 0.413 Tanao Sri-white -80- (RSP11621)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8349319
Overlapping SNPs:
67
Concordance:
42

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495303
Overlapping SNPs:
2
Concordance:
2

Blockchain Registration Information

Transaction ID
0b3b1606160ce57227847db03ca0f496052bfdf6bbfeca15ae4241c35564bcc5
Stamping Certificate
Download PDF (39.7 KB)
SHASUM Hash
a0f8572d5f7bd991afd492d5e1075554059111f7c0e40b64e8086d30ac657f47
QR code for RSP11476

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