Lark's Scythe

RSP 11630

Grower: Kawika Joseph

General Information

Sample Name
Sample 1
Accession Date
August 13, 2020
Reported Plant Sex
Female

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 II

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: 1.27%
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: 0.0549
male female RSP11630

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)

Gene HGVS.c HGVS.p Annotation Annotation Impact Contig Contig Pos Ref/Alt Var Freq
THCAS c.998C>G p.Pro333Arg missense variant moderate contig741 4416830

IGV: Start, Jump

G/C
NGS:
0.182
C90:
0.000

Variants (Select Genes of Interest)

GPPs1

UniProt

c.160A>G p.Lys54Glu missense variant moderate contig676 168409

IGV: Start, Jump

A/G
NGS:
0.026
C90:
0.000
GPPs1

UniProt

c.472T>A p.Leu158Met missense variant moderate contig676 168721

IGV: Start, Jump

T/A
NGS:
0.020
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.948T>G p.Asp316Glu missense variant moderate contig700 1950690

IGV: Start, Jump

A/C
NGS:
0.456
C90:
0.000
PKSG-2b

UniProt

c.945T>G p.Ser315Arg missense variant moderate contig700 1950693

IGV: Start, Jump

A/C
NGS:
0.454
C90:
0.000
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-2b

UniProt

c.-2_1dupATA start lost & conservative inframe insertion high contig700 1951880

IGV: Start, Jump

A/ATAT
NGS:
0.410
C90:
0.000
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
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 0.067 0.133 0.200 0.267
clone distance sibling distance more distant
  1. 0.214 Recon (RSP10755)
  2. 0.217 RINGO S ANGEL (RSP10085)
  3. 0.219 Domnesia (RSP11184)
  4. 0.226 Kimbo Slice (RSP10997)
  5. 0.228 Serious Happiness (RSP10763)
  6. 0.229 Blue Dream (RSP11010)
  7. 0.233 Durban Poison 1 (RSP10996)
  8. 0.234 Morning Light (RSP11409)
  9. 0.234 Jiangji (RSP10653)
  10. 0.235 RKM-2018-013 (RSP11104)
  11. 0.236 Pure Power Plant (RSP11265)
  12. 0.236 Blueberry Cheesecake (RSP10684)
  13. 0.237 Durban Poison 1 (RSP11013)
  14. 0.239 Tygra (RSP10667)
  15. 0.241 Garlic (RSP11341)
  16. 0.241 Blue Dream (RSP11017)
  17. 0.241 Rugburn OG (RSP11353)
  18. 0.243 Blue Dream (RSP11009)
  19. 0.244 Tak-HN (RSP11618)
  20. 0.244 Deadhead OG (RSP11463)

Nearest genetic relatives (Base Tree)

0 0.075 0.150 0.225 0.300
clone distance sibling distance more distant
  1. 0.226 Recon (RSP10755)
  2. 0.245 Blueberry Cheesecake (RSP10684)
  3. 0.246 Kimbo Slice (RSP10997)
  4. 0.260 Pie Hoe (RSP11073)
  5. 0.264 Tygra (RSP10667)
  6. 0.265 Liberty Haze (RSP11000)
  7. 0.265 Jiangji (RSP10653)
  8. 0.267 Hermaphrodite ResearchSample2 (RSP11050)
  9. 0.272 Kyrgyz Gold (RSP11054)
  10. 0.273 Skywalker OG (RSP10837)
  11. 0.275 RKM-2018-026 (RSP11118)
  12. 0.277 Golden Goat 2 (RSP10991)
  13. 0.279 UP Sunrise (RSP10989)
  14. 0.280 Tisza (RSP10659)
  15. 0.281 RKM-2018-022 (RSP11114)
  16. 0.281 Futura 75 (RSP10664)
  17. 0.282 Hermaphrodite Research Sample1 (RSP11049)
  18. 0.283 RKM-2018-029 (RSP11121)
  19. 0.285 Cbot-2019-006 (RSP11134)
  20. 0.285 Durban Poison (RSP11014)

Most genetically distant strains (All Samples)

0 0.125 0.250 0.375 0.500
clone distance sibling distance more distant
  1. 0.498 Cherry Blossom (RSP11318)
  2. 0.478 Cherry Blossom (RSP11323)
  3. 0.462 Cherry Blossom (RSP11328)
  4. 0.447 Cherry Blossom (RSP11331)
  5. 0.443 Cherry Blossom (RSP11301)
  6. 0.443 Unknown- Cherry Wine - 001 (RSP11268)
  7. 0.416 Cherry Blossom (RSP11325)
  8. 0.415 Cherry Blossom (RSP11300)
  9. 0.410 Cherry Blossom (RSP11302)
  10. 0.403 Cherry Blossom (RSP11321)
  11. 0.402 Cherry Blossom (RSP11327)
  12. 0.398 Cherry Blossom (RSP11312)
  13. 0.398 JL yellow (RSP11075)
  14. 0.397 Chematonic Cannatonic x Chemdawg (RSP11394)
  15. 0.396 Alaska (RSP10939)
  16. 0.396 JL 2 (RSP11076)
  17. 0.394 Cherry Blossom (RSP11274)
  18. 0.392 JL 4th Gen 2 (RSP11194)
  19. 0.392 Cherry Blossom (RSP11330)
  20. 0.389 Cherry Blossom (RSP11322)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.410 JL yellow (RSP11075)
  2. 0.360 Blueberry Cheesecake (RSP10672)
  3. 0.352 RKM-2018-006 (RSP11097)
  4. 0.341 Cbot-2019-005 (RSP11133)
  5. 0.338 Cbot-2019-001 (RSP11129)
  6. 0.335 QUEEN JESUS (RSP10105)
  7. 0.332 Skunk 18 (RSP11038)
  8. 0.325 RKM-2018-031 (RSP11123)
  9. 0.323 RKM-2018-019 (RSP11111)
  10. 0.321 Lovrin (RSP10658)
  11. 0.321 RKM-2018-009 (RSP11100)
  12. 0.316 RKM-2018-028 (RSP11120)
  13. 0.315 Black Beauty (RSP11035)
  14. 0.314 Cbot-2019-004 (RSP11132)
  15. 0.314 Carmagnola (RSP10979)
  16. 0.314 Cherry (RSP11143)
  17. 0.313 RKM-2018-023 (RSP11115)
  18. 0.312 Blueberry Cheesecake (RSP10680)
  19. 0.309 Cherry (RSP11142)
  20. 0.307 Ivory (RSP10668)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8346775
Overlapping SNPs:
51
Concordance:
33

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495303
Overlapping SNPs:
3
Concordance:
3

Blockchain Registration Information

SHASUM Hash
b0a01bb6695db2069182162a60d0a9197bb714d5f3f27aadb759577f768d92b5
QR code for RSP11630

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