JL_X_NSPM1_6
RSP 11468
Grower: Kevin McKernan
General Information
- Accession Date
- May 7, 2020
- Reported Plant Sex
- Male
- Report Type
- StrainSEEK v2 3.2Mb
- 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.
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.
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.
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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).
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This chart represents the Illumina sequence coverage over the CBCA synthase gene.
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Variants (THCAS, CBDAS, and CBCAS)
No variants to report
Variants (Select Genes of Interest)
PKSG-2a | c.241G>A | p.Val81Met | missense variant | moderate | contig700 | 1945149 | C/T |
|
PKSG-2a | c.240T>G | p.Asp80Glu | missense variant | moderate | contig700 | 1945150 | A/C |
|
PKSG-2a | c.230T>C | p.Val77Ala | missense variant | moderate | contig700 | 1945160 | A/G |
|
PKSG-2a | c.224A>G | p.Lys75Arg | missense variant | moderate | contig700 | 1945166 | T/C | |
PKSG-2a | c.188T>G | p.Ile63Ser | missense variant | moderate | contig700 | 1945202 | A/C |
|
PKSG-2a | c.188T>A | p.Ile63Asn | missense variant | moderate | contig700 | 1945202 | A/T |
|
PKSG-2a | c.187A>T | p.Ile63Phe | missense variant | moderate | contig700 | 1945203 | T/A |
|
PKSG-2a | c.67T>A | p.Phe23Ile | missense variant | moderate | contig700 | 1945567 | A/T | |
PKSG-2a | c.31A>T | p.Thr11Ser | missense variant | moderate | contig700 | 1945603 | T/A | |
PKSG-2b | c.1152T>A | p.Asn384Lys | missense variant | moderate | contig700 | 1950486 | A/T | |
PKSG-2b | c.1132C>G | p.Leu378Val | missense variant | moderate | contig700 | 1950506 | G/C |
|
PKSG-2b | c.1117A>G | p.Ile373Val | missense variant | moderate | contig700 | 1950521 | T/C | |
PKSG-2b | c.774G>A | p.Met258Ile | missense variant | moderate | contig700 | 1950864 | C/T | |
PKSG-2b | c.241G>A | p.Val81Met | missense variant | moderate | contig700 | 1951397 | C/T |
|
PKSG-2b | c.240T>G | p.Asp80Glu | missense variant | moderate | contig700 | 1951398 | A/C |
|
PKSG-2b | c.230T>C | p.Val77Ala | missense variant | moderate | contig700 | 1951408 | A/G | |
PKSG-2b | c.224A>G | p.Lys75Arg | missense variant | moderate | contig700 | 1951414 | T/C | |
PKSG-2b | c.188T>G | p.Ile63Ser | missense variant | moderate | contig700 | 1951450 | A/C |
|
PKSG-2b | c.188T>A | p.Ile63Asn | missense variant | moderate | contig700 | 1951450 | A/T |
|
PKSG-2b | c.187A>T | p.Ile63Phe | missense variant | moderate | contig700 | 1951451 | T/A |
|
PKSG-2b | c.31A>T | p.Thr11Ser | missense variant | moderate | contig700 | 1951851 | T/A | |
PKSG-4b | c.496A>G | p.Lys166Glu | missense variant | moderate | contig700 | 2721177 | T/C | |
PKSG-4b | c.489delT | p.Phe163fs | frameshift variant | high | contig700 | 2721183 | CA/C | |
PKSG-4b | c.485A>G | p.Lys162Arg | missense variant | moderate | contig700 | 2721188 | T/C | |
PKSG-4b | c.431T>G | p.Val144Gly | missense variant | moderate | contig700 | 2721242 | A/C | |
PKSG-4b |
c.352_355del |
p.Thr118fs | frameshift variant | high | contig700 | 2721317 | CCTGT/C |
|
PKSG-4b | c.323A>G | p.Glu108Gly | missense variant | moderate | contig700 | 2721350 | T/C |
|
DXR-2 | c.1319T>C | p.Ile440Thr | missense variant | moderate | contig380 | 285250 | A/G |
|
DXR-2 | c.431C>G | p.Ala144Gly | missense variant | moderate | contig380 | 287760 | G/C | |
aPT4 | c.97T>C | p.Tyr33His | missense variant | moderate | contig121 | 2828753 | T/C |
|
aPT4 | c.153A>C | p.Lys51Asn | missense variant | moderate | contig121 | 2828809 | A/C |
|
aPT4 | c.198A>C | p.Lys66Asn | missense variant | moderate | contig121 | 2828854 | A/C |
|
aPT4 |
c.235_236del |
p.Val79fs | frameshift variant | high | contig121 | 2829030 | ATG/A |
|
aPT4 | c.238delT | p.Ser80fs | frameshift variant | high | contig121 | 2829034 | AT/A |
|
aPT4 | c.1168T>C | p.Tyr390His | missense variant | moderate | contig121 | 2833503 | T/C |
|
aPT1 |
c.95_97delGT |
p.Cys32del | disruptive inframe deletion | moderate | contig121 | 2835800 | ATGT/A | |
aPT1 | c.406A>G | p.Ile136Val | missense variant | moderate | contig121 | 2839605 | A/G | |
HDS-2 |
c.82_93delGT |
p.Val28_Thr3 |
conservative inframe deletion | moderate | contig95 | 1989748 |
CGTAACCGGAAC |
|
HDS-2 | c.127T>G | p.Ser43Ala | missense variant | moderate | contig95 | 1989794 | T/G |
|
Nearest genetic relatives (All Samples)
- 0.078 JL Cross 2 (RSP11503)
- 0.091 JL Cross 22 (RSP11523)
- 0.092 JL Cross 28 (RSP11529)
- 0.093 JL x NSPM1 3 (RSP11481)
- 0.097 JL x NSPM1 1 (RSP11478)
- 0.098 JL Tent 1 yellow stake (RSP11488)
- 0.099 JL Tent 4 (RSP11491)
- 0.100 JL X NSPM1 30 (RSP11476)
- 0.102 JL Tent 2 (RSP11489)
- 0.103 JL Tent 3 (RSP11490)
- 0.105 JL Cross 24 (RSP11525)
- 0.106 JL X NSPM1 14 (RSP11473)
- 0.109 JL Cross 17 (RSP11518)
- 0.110 JL X NSPM1 7 (RSP11469)
- 0.111 JL Cross 19 (RSP11520)
- 0.116 JL X NSPM1 33 (RSP11477)
- 0.116 JL Cross 9 (RSP11510)
- 0.118 JL X NSPM1 22 (RSP11475)
- 0.123 JL Cross 18 (RSP11519)
- 0.126 JL Cross 27 (RSP11528)
Most genetically distant strains (All Samples)
- 0.457 80E (RSP11213)
- 0.442 Cbot-2019-005 (RSP11133)
- 0.433 80E (RSP11212)
- 0.425 80E (RSP11211)
- 0.418 Northern Lights (RSP11501)
- 0.416 Danny Noonan (RSP11070)
- 0.409 CS (RSP11208)
- 0.405 Northern Skunk (RSP11456)
- 0.403 Tanao Sri-white -80- (RSP11621)
- 0.402 IUP3 (SRR14708256)
- 0.401 R3in134 (SRR14708218)
- 0.400 VIR 223 - Bernburgskaya Odnodomnaya - bm (SRR14708217)
- 0.399 AVIDEKEL 2 0 (RSP11174)
- 0.399 R1in136 (SRR14708226)
- 0.399 Cherry Blossom (RSP11323)
- 0.397 IUP2 (SRR14708257)
- 0.397 Carmagnola (RSP11202)
- 0.395 Carmaleonte (RSP11207)
- 0.395 Tanao Sri -46- (RSP11486)
- 0.395 R1in136 (SRR14708227)
Nearest genetic relative in Phylos dataset
- Overlapping SNPs:
- 68
- Concordance:
- 40
Nearest genetic relative in Lynch dataset
- Overlapping SNPs:
- 2
- Concordance:
- 2
Blockchain Registration Information
- Transaction ID
-
b192e4b032a8bf0b
ebe9bbf779de0adc 3af67cdeaeeedf90 6de46fdc6d03c193 - Stamping Certificate
- Download PDF (39.7 KB)
- SHASUM Hash
-
8adf82588ab101e3
fd1c2e162f05c6f8 90f912448ba34ee2 adf31a17dc033ac0