SLH C3

RSP 12942

Grower: Zamir Punja

General Information

Sample Name
SLH C3 #17 roots from flowering plant organic
Accession Date
September 28, 2023
Reported Plant Sex
Female
Microbiome
Krona Plot

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: Rare
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 I

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: 1.22%
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: 0.0282
male female RSP12942

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)

PHL-2 c.455A>C p.Asp152Ala missense variant moderate contig2621 339191

IGV: Start, Jump

A/C
NGS:
0.018
C90:
0.507
PHL-2 c.1096G>A p.Ala366Thr missense variant moderate contig2621 340374

IGV: Start, Jump

G/A
NGS:
0.090
C90:
0.531
PHL-2 c.2564T>A p.Phe855Tyr missense variant moderate contig2621 342607

IGV: Start, Jump

T/A
NGS:
0.064
C90:
0.732
PHL-2 c.2578T>A p.Leu860Ile missense variant moderate contig2621 342621

IGV: Start, Jump

T/A
NGS:
0.068
C90:
0.746
PHL-2 c.2756A>C p.Glu919Ala missense variant moderate contig2621 342799

IGV: Start, Jump

A/C
NGS:
0.064
C90:
0.675
PHL-2 c.2783G>A p.Ser928Asn missense variant moderate contig2621 342826

IGV: Start, Jump

G/A
NGS:
0.107
C90:
0.890
PHL-2 c.3002A>G p.Tyr1001Cys missense variant moderate contig2621 343045

IGV: Start, Jump

A/G
NGS:
0.055
C90:
0.316
PHL-2 c.3027G>T p.Lys1009Asn missense variant moderate contig2621 343070

IGV: Start, Jump

G/T
NGS:
0.055
C90:
0.311
PHL-2 c.3033T>G p.Cys1011Trp missense variant moderate contig2621 343076

IGV: Start, Jump

T/G
NGS:
0.055
C90:
0.292
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.431T>G p.Val144Gly missense variant moderate contig700 2721242

IGV: Start, Jump

A/C
NGS:
0.575
C90:
0.679
PKSG-4b

UniProt

c.419A>G p.Asp140Gly missense variant moderate contig700 2721254

IGV: Start, Jump

T/C
NGS:
0.430
C90:
0.440
PKSG-4b

UniProt

c.352_355delACAG p.Thr118fs frameshift variant high contig700 2721317

IGV: Start, Jump

CCTGT/C
NGS:
0.529
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
FAD2-2

UniProt

c.161T>A p.Leu54His missense variant moderate contig83 1803208

IGV: Start, Jump

A/T
NGS:
0.156
C90:
0.000
FAD2-2

UniProt

c.110C>T p.Ala37Val missense variant moderate contig83 1803259

IGV: Start, Jump

G/A
NGS:
0.013
C90:
0.000
ELF3

UniProt

c.358G>A p.Gly120Arg missense variant moderate contig97 242064

IGV: Start, Jump

G/A
NGS:
0.099
C90:
0.493
ELF3

UniProt

c.772A>G p.Ser258Gly missense variant moderate contig97 242478

IGV: Start, Jump

A/G
NGS:
0.112
C90:
0.000
ELF3

UniProt

c.812G>C p.Gly271Ala missense variant moderate contig97 242518

IGV: Start, Jump

G/C
NGS:
0.114
C90:
0.938
ELF3

UniProt

c.1966C>G p.Pro656Ala missense variant moderate contig97 244797

IGV: Start, Jump

C/G
NGS:
0.123
C90:
0.632
ELF3

UniProt

c.2198G>T p.Arg733Leu missense variant moderate contig97 245029

IGV: Start, Jump

G/T
NGS:
0.125
C90:
0.531
ELF5

UniProt

c.1162A>G p.Thr388Ala missense variant moderate contig382 881132

IGV: Start, Jump

A/G
NGS:
0.011
C90:
0.033
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
EMF2

UniProt

c.1772A>G p.Gln591Arg missense variant moderate contig954 3059929

IGV: Start, Jump

A/G
NGS:
0.092
C90:
0.876
FLD

UniProt

c.2981T>C p.Met994Thr missense variant moderate contig1450 2044012

IGV: Start, Jump

A/G
NGS:
0.064
C90:
0.478
FLD

UniProt

c.2964C>A p.Asp988Glu missense variant moderate contig1450 2044029

IGV: Start, Jump

G/T
NGS:
0.057
C90:
0.464
PIE1-1

UniProt

c.6725C>T p.Ala2242Val missense variant moderate contig1225 2289290

IGV: Start, Jump

C/T
NGS:
0.046
C90:
0.737

Nearest genetic relatives (All Samples)

0 0.075 0.150 0.225 0.300
clone distance sibling distance more distant
  1. 0.182 SLH C3 (RSP12943)
  2. 0.245 Pie Face Mac (RSP11974)
  3. 0.246 Casco Kush (RSP11167)
  4. 0.253 Blue Dream (RSP11009)
  5. 0.254 Sunday Driver (RSP11071)
  6. 0.256 Wedding Cake x MAC (RSP11464)
  7. 0.256 Domnesia (RSP11184)
  8. 0.258 JL Cross 29 (RSP11530)
  9. 0.261 Pieface (RSP12794)
  10. 0.261 Blue Dream (RSP11010)
  11. 0.264 Hermaphrodite ResearchSample2 (RSP11043)
  12. 0.266 Blue Dream (RSP11007)
  13. 0.266 Blue Dream (RSP11008)
  14. 0.266 Blue Dream (RSP11006)
  15. 0.268 SHERBERT (RSP11355)
  16. 0.270 White Chronic (RSP11220)
  17. 0.271 UnObtanium (RSP11611)
  18. 0.272 Hermaphrodite ResearchSample2 (RSP11050)
  19. 0.272 Super Runtz (RSP12810)
  20. 0.272 Durban Poison 1 (RSP11013)

Most genetically distant strains (All Samples)

0 0.125 0.250 0.375 0.500
clone distance sibling distance more distant
  1. 0.482 Cherry Blossom (RSP11323)
  2. 0.445 Cherry Blossom (RSP11328)
  3. 0.433 Cherry Blossom CBG (RSP11303)
  4. 0.431 Cherry Blossom (RSP11298)
  5. 0.426 Cherry Blossom (RSP11309)
  6. 0.423 Cherry Blossom (RSP11318)
  7. 0.423 Cherry Blossom (RSP11306)
  8. 0.423 Unknown- Cherry Wine - 001 (RSP11268)
  9. 0.417 Jamaican Lion (RSP12916)
  10. 0.416 Candy Kush (RSP11492)
  11. 0.414 Unknown- Cherry Wine - 003 (RSP11270)
  12. 0.412 Cherry Blossom (RSP11334)
  13. 0.412 Jamaican Lion (RSP12917)
  14. 0.408 Cherry Blossom (RSP11327)
  15. 0.407 JL 3rd Gen Mother (RSP11214)
  16. 0.406 Cherry Blossom (RSP11325)
  17. 0.406 Tanao Sri 46 (RSP11486)
  18. 0.404 Cherry Fog XL (RSP11458)
  19. 0.404 Gorilla Glue (RSP11493)
  20. 0.404 Cherry Blossom (RSP11311)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8347180
Overlapping SNPs:
82
Concordance:
48

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495250
Overlapping SNPs:
3
Concordance:
3

Blockchain Registration Information

Transaction ID
d9b62713bbca53f5c240a297a282564c5ab75dd95c6a79a00c6e8df3055d12f0
Stamping Certificate
Download PDF (39.4 KB)
SHASUM Hash
3d7c31e9f20b5c7fa74eaff11d1ac0ba42efd9a0c636d2302981a8b6f0092640
QR code for RSP12942

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