Advanced Strain Search

SLH C3

RSP 12943

Grower: Zamir Punja

General Information

Sample Name
SLH C3 #18 roots from flowering plant organic
Accession Date
September 28, 2023
Reported Plant Sex
Female
Microbiome
Krona Plot
Fungal Microbiome
Krona Plot
Bacterial Microbiome
Krona Plot
Viral 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

Chemical Information

Cannabinoid and terpenoid information provided by the grower.

Cannabinoids

No information provided.

Terpenoids

No information provided.

Genetic Information

Plant Type
Unknown

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: 1.48%

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: 0.0187

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)
EMF1-2

UniProt

c.710A>C p.His237Pro missense variant moderate contig885 810

IGV: Start, Jump

A/C
NGS:
0.362
C90:
0.474
PHL-2 c.455A>C p.Asp152Ala missense variant moderate contig2621 339191

IGV: Start, Jump

A/C
NGS:
0.239
C90:
0.507
PHL-2 c.2756A>C p.Glu919Ala missense variant moderate contig2621 342799

IGV: Start, Jump

A/C
NGS:
0.409
C90:
0.675
PHL-2 c.3202A>C p.Thr1068Pro missense variant moderate contig2621 343245

IGV: Start, Jump

A/C
NGS:
0.122
C90:
0.000
PHL-2 c.3209A>G p.Gln1070Arg missense variant moderate contig2621 343252

IGV: Start, Jump

A/G
NGS:
0.599
C90:
0.885
PHL-2 c.3467A>G p.Gln1156Arg missense variant moderate contig2621 343510

IGV: Start, Jump

A/G
NGS:
0.487
C90:
0.713
PHL-2 c.3552delG p.Lys1185fs frameshift variant high contig2621 343593

IGV: Start, Jump

CG/C
NGS:
0.131
C90:
0.000
PKSG-4b

UniProt

c.496A>G p.Lys166Glu missense variant moderate contig700 2721177

IGV: Start, Jump

T/C
NGS:
0.513
C90:
0.684
PKSG-4b

UniProt

c.489delT p.Phe163fs frameshift variant high contig700 2721183

IGV: Start, Jump

CA/C
NGS:
0.649
C90:
0.761
PKSG-4b

UniProt

c.485A>G p.Lys162Arg missense variant moderate contig700 2721188

IGV: Start, Jump

T/C
NGS:
0.438
C90:
0.301
PKSG-4b

UniProt

c.431T>G p.Val144Gly missense variant moderate contig700 2721242

IGV: Start, Jump

A/C
NGS:
0.523
C90:
0.679
PKSG-4b

UniProt

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

IGV: Start, Jump

T/C
NGS:
0.379
C90:
0.440
PKSG-4b

UniProt

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

IGV: Start, Jump

CCTGT/C
NGS:
0.357
C90:
0.000
PKSG-4b

UniProt

c.323A>G p.Glu108Gly missense variant moderate contig700 2721350

IGV: Start, Jump

T/C
NGS:
0.335
C90:
0.000
HDS-2

UniProt

c.127T>G p.Ser43Ala missense variant moderate contig95 1989794

IGV: Start, Jump

T/G
NGS:
0.522
C90:
0.000
AAE1-2

UniProt

c.1415G>A p.Ser472Asn missense variant moderate contig81 210377

IGV: Start, Jump

G/A
NGS:
0.157
C90:
0.000
AAE1-2

UniProt

c.1417A>G p.Thr473Ala missense variant moderate contig81 210379

IGV: Start, Jump

A/G
NGS:
0.158
C90:
0.000
AAE1-2

UniProt

c.1434G>T p.Glu478Asp missense variant moderate contig81 210396

IGV: Start, Jump

G/T
NGS:
0.163
C90:
0.000
PHL-1

UniProt

c.2623A>G p.Thr875Ala missense variant moderate contig1439 1487174

IGV: Start, Jump

T/C
NGS:
0.405
C90:
0.000
FAD4

UniProt

c.121G>T p.Val41Phe missense variant moderate contig784 1690873

IGV: Start, Jump

G/T
NGS:
0.075
C90:
0.000
HDS-1

UniProt

c.1618A>G p.Ile540Val missense variant moderate contig1891 885936

IGV: Start, Jump

T/C
NGS:
0.584
C90:
0.861
HDS-1

UniProt

c.56C>G p.Ala19Gly missense variant moderate contig1891 889336

IGV: Start, Jump

G/C
NGS:
0.648
C90:
0.943
HDS-1

UniProt

c.35G>A p.Cys12Tyr missense variant moderate contig1891 889357

IGV: Start, Jump

C/T
NGS:
0.481
C90:
0.646
FAD2

UniProt

c.784delG p.Val262fs frameshift variant high contig1460 1083475

IGV: Start, Jump

AC/A
NGS:
0.001
C90:
0.000
EMF2

UniProt

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

IGV: Start, Jump

A/G
NGS:
0.584
C90:
0.876
FLD

UniProt

c.2686G>A p.Ala896Thr missense variant moderate contig1450 2044848

IGV: Start, Jump

C/T
NGS:
0.271
C90:
0.225
PIE1-1

UniProt

c.1222C>G p.Gln408Glu missense variant moderate contig1225 2281482

IGV: Start, Jump

C/G
NGS:
0.542
C90:
0.852
PKSB-3

UniProt

c.1901C>G p.Ala634Gly missense variant moderate contig93 3340008

IGV: Start, Jump

C/G
NGS:
0.139
C90:
0.000

Nearest genetic relatives (All Samples)

closely related moderately related distantly related
  1. 0.098 SLH C3 (RSP12942)
  2. 0.231 Wedding Cake x MAC (RSP11464)
  3. 0.236 Pie Face Mac (RSP11974)
  4. 0.237 Domnesia (RSP11184)
  5. 0.238 Casco Kush (RSP11167)
  6. 0.247 Blue Dream (RSP11006)
  7. 0.248 JL Cross 29 (RSP11530)
  8. 0.248 Blue Dream (RSP11009)
  9. 0.250 Sunday Driver (RSP11071)
  10. 0.252 Strawberry Cough (RSP11356)
  11. 0.253 Pieface (RSP12794)
  12. 0.254 SHERBERT (RSP11355)
  13. 0.255 Blue Dream (RSP11017)
  14. 0.256 Blue Dream (RSP11007)
  15. 0.257 Blue Dream (RSP11008)
  16. 0.257 Blue Dream (RSP11010)
  17. 0.257 Serious Happiness (RSP10763)
  18. 0.260 Dominion Skunk (RSP11354)
  19. 0.261 White Chronic (RSP11220)
  20. 0.264 Saint Jack (RSP11179)

Nearest genetic relatives (Base Tree)

closely related moderately related distantly related
  1. 0.261 Hermaphrodite ResearchSample2 (RSP11050)
  2. 0.272 Durban Poison (RSP11014)
  3. 0.274 Liberty Haze (RSP11000)
  4. 0.278 Gold Cracker (RSP11048)
  5. 0.284 RKM-2018-034 (RSP11126)
  6. 0.287 Blue Dream (RSP11033)
  7. 0.287 Skywalker OG (RSP10837)
  8. 0.296 Blueberry Cheesecake (RSP10684)
  9. 0.296 RKM-2018-027 (RSP11119)
  10. 0.297 RKM-2018-020 (RSP11112)
  11. 0.299 Recon (RSP10755)
  12. 0.301 Golden Goat 2 (RSP10991)
  13. 0.301 RKM-2018-009 (RSP11100)
  14. 0.301 RKM-2018-003 (RSP11094)
  15. 0.302 Blueberry Cheesecake (RSP10672)
  16. 0.302 Queen Jesus (RSP10105)
  17. 0.303 Kimbo Slice (RSP10997)
  18. 0.304 Hermaphrodite Research Sample1 (RSP11049)
  19. 0.304 RKM-2018-033 (RSP11125)
  20. 0.304 RKM-2018-031 (RSP11123)

Most genetically distant strains (All Samples)

closely related moderately related distantly related
  1. 0.482 Cherry Blossom (RSP11323)
  2. 0.440 Jamaican Lion (RSP12916)
  3. 0.433 Cherry Blossom (RSP11328)
  4. 0.422 Cherry Blossom (RSP11298)
  5. 0.422 Cherry Blossom (RSP11309)
  6. 0.418 Cherry Blossom (RSP11318)
  7. 0.418 Unknown- Cherry Wine - 001 (RSP11268)
  8. 0.417 Cherry Blossom CBG (RSP11303)
  9. 0.413 Tanao Sri 46 (RSP11486)
  10. 0.413 Cherry Blossom (RSP11306)
  11. 0.412 JL yellow (RSP11075)
  12. 0.410 Unknown- Cherry Wine - 003 (RSP11270)
  13. 0.405 JL x NSPM1 4 (RSP11482)
  14. 0.404 JL 3rd Gen Mother (RSP11197)
  15. 0.403 Cherry Blossom (RSP11274)
  16. 0.402 Unknown- Cherry Wine - 002 (RSP11269)
  17. 0.402 JL 3rd Gen Mother (RSP11214)
  18. 0.399 AVIDEKEL 2 0 (RSP11174)
  19. 0.399 Candy Kush (RSP11492)
  20. 0.398 Cherry Blossom (RSP11314)

Most genetically distant strains (Base Tree)

closely related moderately related distantly related
  1. 0.414 JL yellow (RSP11075)
  2. 0.383 Cbot-2019-005 (RSP11133)
  3. 0.383 Monoica (RSP10241)
  4. 0.382 Feral (RSP10890)
  5. 0.378 Kush Hemp E1 (RSP11128)
  6. 0.375 RKM-2018-028 (RSP11120)
  7. 0.371 Carmagnola (RSP10979)
  8. 0.366 Santhica27 (RSP11047)
  9. 0.363 Cbot-2019-001 (RSP11129)
  10. 0.362 Carmagnola (RSP11037)
  11. 0.360 Tisza (RSP11044)
  12. 0.360 Cherry (RSP11143)
  13. 0.359 Lovrin (RSP10658)
  14. 0.359 Fedora 17 (RSP10661)
  15. 0.355 Futura 75 (RSP10664)
  16. 0.353 USO 31 (RSP10981)
  17. 0.352 KYRG-11 (RSP11051)
  18. 0.350 RKM-2018-018 (RSP11110)
  19. 0.350 Kyrgyz Gold (RSP11054)
  20. 0.349 RKM-2018-026 (RSP11118)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8347180
Overlapping SNPs:
91
Concordance:
53

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495250
Overlapping SNPs:
3
Concordance:
3

Blockchain Registration Information

Transaction ID
4d5d1a9e29c81db2221ad753bbe3a16b923109bdb3dea83634e4d81020ba2871
Stamping Certificate
Download PDF (39.5 KB)
SHASUM Hash
0561a21460eea02f8d37004b0a62a0a91613f0143ab7411447ecff92142be0df
QR code for RSP12943

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