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Tak-HN

RSP 11618

Grower: Plant Genomic Laboratory, Medicinal Plant Research Institute

General Information

Sample Name
CS Sativa
Accession Date
July 20, 2020
Reported Plant Sex
not reported
DNA Extracted From
Unknown

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

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: 1.42%
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: 0.0688
male female RSP11618

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.224A>G p.Lys75Arg missense variant moderate contig700 1945166

IGV: Start, Jump

T/C
NGS:
0.143
C90:
0.962
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.944G>A p.Ser315Asn missense variant moderate contig700 1950694

IGV: Start, Jump

C/T
NGS:
0.445
C90:
0.000
PKSG-2b

UniProt

c.934C>G p.His312Asp missense variant moderate contig700 1950704

IGV: Start, Jump

G/C
NGS:
0.410
C90:
0.000
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.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.557+2T>C splice donor variant & intron variant high contig700 2721114

IGV: Start, Jump

A/G
NGS:
0.011
C90:
0.000
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.489delT p.Phe163fs frameshift variant high contig700 2721183

IGV: Start, Jump

CA/C
NGS:
0.792
C90:
0.761
PKSG-4b

UniProt

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

IGV: Start, Jump

T/C
NGS:
0.643
C90:
0.301
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.418G>T p.Asp140Tyr missense variant moderate contig700 2721255

IGV: Start, Jump

C/A
NGS:
0.002
C90:
0.000
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.1319T>C p.Ile440Thr missense variant moderate contig380 285250

IGV: Start, Jump

A/G
NGS:
0.480
C90:
0.000
DXR-2

UniProt

c.76C>A p.Pro26Thr missense variant moderate contig380 289205

IGV: Start, Jump

G/T
NGS:
0.004
C90:
0.000
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.202T>A p.Leu68Ile missense variant moderate contig121 2828858

IGV: Start, Jump

T/A
NGS:
0.068
C90:
0.000
aPT4

UniProt

c.218A>G p.Asn73Ser missense variant moderate contig121 2828874

IGV: Start, Jump

A/G
NGS:
0.018
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.626A>G p.Asn209Ser missense variant moderate contig121 2830904

IGV: Start, Jump

A/G
NGS:
0.035
C90:
0.000
aPT4

UniProt

c.656G>T p.Cys219Phe missense variant moderate contig121 2830934

IGV: Start, Jump

G/T
NGS:
0.002
C90:
0.000
aPT4

UniProt

c.1127C>A p.Pro376Gln missense variant & splice region variant moderate contig121 2833312

IGV: Start, Jump

C/A
NGS:
0.018
C90:
0.000
aPT1

UniProt

c.160A>C p.Thr54Pro missense variant moderate contig121 2835867

IGV: Start, Jump

A/C
NGS:
0.086
C90:
0.048
aPT1

UniProt

c.406A>G p.Ile136Val missense variant moderate contig121 2839605

IGV: Start, Jump

A/G
NGS:
0.579
C90:
0.761
aPT1

UniProt

c.670T>A p.Ser224Thr missense variant moderate contig121 2840278

IGV: Start, Jump

T/A
NGS:
0.077
C90:
0.000
aPT1

UniProt

c.727G>T p.Glu243* stop gained high contig121 2841362

IGV: Start, Jump

G/T
NGS:
0.127
C90:
0.100
aPT1

UniProt

c.864C>G p.Asn288Lys missense variant moderate contig121 2842407

IGV: Start, Jump

C/G
NGS:
0.075
C90:
0.062
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 0.058 0.117 0.175 0.233
closely related moderately related distantly related
  1. 0.189 R3 (RSP11616)
  2. 0.195 R1 (RSP11483)
  3. 0.198 R2 (RSP11615)
  4. 0.200 YNN (SRR14708199)
  5. 0.200 GXI (SRR14708198)
  6. 0.204 R4 (RSP11617)
  7. 0.211 KYRG-151 (RSP11052)
  8. 0.216 IUL2 (SRR14708253)
  9. 0.219 Serious Happiness (RSP10763)
  10. 0.220 IBR3 (SRR14708249)
  11. 0.222 Electra (RSP11366)
  12. 0.223 Tisza (RSP10659)
  13. 0.224 IMA (SRR14708203)
  14. 0.224 Durban Poison #1 (RSP11013)
  15. 0.225 IUL1 (SRR14708254)
  16. 0.226 SCN (SRR14708201)
  17. 0.227 C-930 lot 211005 (RSP12603)
  18. 0.227 Doug s Varin (RSP11243)
  19. 0.229 IUL3 (SRR14708252)
  20. 0.229 IBR2 (SRR14708250)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
closely related moderately related distantly related
  1. 0.441 Cherry Blossom (RSP11318)
  2. 0.428 Cherry Blossom (RSP11323)
  3. 0.397 Unknown--Cherry Wine---001- (RSP11268)
  4. 0.396 Cherry Blossom (RSP11301)
  5. 0.392 Cherry Blossom (RSP11328)
  6. 0.384 Chematonic -Cannatonic x Chemdawg- (RSP11394)
  7. 0.383 GG4 (RSP11978)
  8. 0.383 Chem 91 (RSP11185)
  9. 0.379 Cherry Blossom (RSP11300)
  10. 0.374 Northern Skunk (RSP11456)
  11. 0.374 AVIDEKEL 2 0 (RSP11174)
  12. 0.372 Danny Noonan (RSP11070)
  13. 0.371 Cherry Blossom (RSP11274)
  14. 0.370 Cherry Blossom (RSP11312)
  15. 0.369 Cherry Blossom (RSP11306)
  16. 0.369 Cherry Blossom (RSP11311)
  17. 0.369 B52 (SRR14708255)
  18. 0.368 Cherry Blossom (RSP11331)
  19. 0.367 JL yellow (RSP11075)
  20. 0.365 BagSeed (RSP12627)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4448786
Overlapping SNPs:
62
Concordance:
41

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495180
Overlapping SNPs:
3
Concordance:
3

Blockchain Registration Information

SHASUM Hash
183c5591fc61e4c93385757d240d4d71d5cd5dde9dcb6195cc309a05fab2a56e
QR code for RSP11618

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