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R2

RSP 11615

Grower: Plant Genomic Laboratory, Medicinal Plant Research Institute

General Information

Sample Name
CS Sativa
Accession Date
July 20, 2020
Reported Plant Sex
not reported

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 III

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: 1.43%
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: 0.0976
male female RSP11615

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-4a

UniProt

c.1191_1193delTTA p.Tyr398del disruptive inframe deletion moderate contig700 1938600

IGV: Start, Jump

AATT/A
NGS:
0.167
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-2a

UniProt

c.-2_1delATA p.Met1del start lost & conservative inframe deletion high contig700 1945632

IGV: Start, Jump

ATAT/A
NGS:
0.009
C90:
0.000
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.31A>T p.Thr11Ser missense variant moderate contig700 1951851

IGV: Start, Jump

T/A
NGS:
0.844
C90:
0.880
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.554A>G p.Tyr185Cys missense variant moderate contig700 2721119

IGV: Start, Jump

T/C
NGS:
0.004
C90:
0.000
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.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.154G>A p.Val52Ile missense variant moderate contig83 1803215

IGV: Start, Jump

C/T
NGS:
0.022
C90:
0.000
FAD2-2

UniProt

c.137G>A p.Gly46Glu missense variant moderate contig83 1803232

IGV: Start, Jump

C/T
NGS:
0.002
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.302A>G p.Asn101Ser missense variant moderate contig121 2829099

IGV: Start, Jump

A/G
NGS:
0.349
C90:
0.000
aPT4

UniProt

c.1168T>C p.Tyr390His missense variant moderate contig121 2833503

IGV: Start, Jump

T/C
NGS:
0.546
C90:
0.000
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.574A>T p.Met192Leu missense variant moderate contig121 2840182

IGV: Start, Jump

A/T
NGS:
0.024
C90:
0.000
aPT1

UniProt

c.629C>T p.Thr210Ile missense variant moderate contig121 2840237

IGV: Start, Jump

C/T
NGS:
0.561
C90:
0.598
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.766T>C p.Tyr256His missense variant moderate contig121 2841545

IGV: Start, Jump

T/C
NGS:
0.002
C90:
0.000
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 0.083 0.167 0.250 0.333
clone distance sibling distance more distant
  1. 0.205 R1 (RSP11483)
  2. 0.207 Tak-HN (RSP11618)
  3. 0.243 R3 (RSP11616)
  4. 0.247 R4 (RSP11617)
  5. 0.269 KYRG-21 (RSP11053)
  6. 0.277 Jiangji (RSP10653)
  7. 0.280 KYRG-151 (RSP11052)
  8. 0.285 Kyrgyz Gold (RSP11054)
  9. 0.288 Miss X (RSP10999)
  10. 0.291 Electra (RSP11366)
  11. 0.292 KYRG-11 (RSP11051)
  12. 0.294 Tisza (RSP11044)
  13. 0.295 Lift (RSP11378)
  14. 0.295 USO 31 (RSP10983)
  15. 0.297 Tisza (RSP10659)
  16. 0.299 Tygra (RSP10667)
  17. 0.299 Santhica27 (RSP11047)
  18. 0.300 Eletta Campana (RSP11209)
  19. 0.301 Doug s Varin (RSP11243)
  20. 0.302 Carmagnola USO 31 (RSP11204)

Nearest genetic relatives (Base Tree)

0 0.092 0.183 0.275 0.367
clone distance sibling distance more distant
  1. 0.290 Kyrgyz Gold (RSP11054)
  2. 0.293 Jiangji (RSP10653)
  3. 0.295 KYRG-11 (RSP11051)
  4. 0.296 Tisza (RSP11044)
  5. 0.302 Tisza (RSP10659)
  6. 0.308 Recon (RSP10755)
  7. 0.311 Santhica27 (RSP11047)
  8. 0.313 Feral (RSP10890)
  9. 0.313 Fedora 17 (RSP10661)
  10. 0.315 Carmagnola (RSP10979)
  11. 0.318 Futura 75 (RSP10664)
  12. 0.318 Lovrin (RSP10658)
  13. 0.323 Tygra (RSP10667)
  14. 0.332 Kimbo Slice (RSP10997)
  15. 0.333 Carmagnola (RSP11037)
  16. 0.337 Durban Poison (RSP11014)
  17. 0.337 Blueberry Cheesecake (RSP10684)
  18. 0.337 Monoica (RSP10241)
  19. 0.338 USO 31 (RSP10981)
  20. 0.341 Hermaphrodite ResearchSample2 (RSP11050)

Most genetically distant strains (All Samples)

0 0.125 0.250 0.375 0.500
clone distance sibling distance more distant
  1. 0.483 Chem 91 (RSP11185)
  2. 0.469 Cherry Blossom (RSP11318)
  3. 0.460 RKM-2018-002 (RSP11093)
  4. 0.456 Chematonic Cannatonic x Chemdawg (RSP11394)
  5. 0.443 Dave Pineapple (RSP11626)
  6. 0.441 New York City Deisel (RSP11225)
  7. 0.437 Ringo s Gift Katie s Cut (RSP11624)
  8. 0.437 501st OG (RSP11241)
  9. 0.434 UP Sunset (RSP11256)
  10. 0.434 Sour D (RSP11343)
  11. 0.433 Green Crack (RSP11339)
  12. 0.432 White Label 1 (RSP11336)
  13. 0.431 Escape Velocity (RSP11165)
  14. 0.431 Medxotic (RSP11410)
  15. 0.430 Right Mark (RSP11628)
  16. 0.430 Mother s Milk No 31 (RSP11623)
  17. 0.429 Lemon Skunk (RSP11229)
  18. 0.428 Queen Dream CBG (RSP11287)
  19. 0.427 GG 4 (RSP11461)
  20. 0.427 RKM-2018-012 (RSP11103)

Most genetically distant strains (Base Tree)

0 0.125 0.250 0.375 0.500
clone distance sibling distance more distant
  1. 0.477 RKM-2018-002 (RSP11093)
  2. 0.432 RKM-2018-028 (RSP11120)
  3. 0.430 RKM-2018-018 (RSP11110)
  4. 0.429 Sour Raspberry (RSP10551)
  5. 0.422 Kush Hemp E1 (RSP11128)
  6. 0.420 Skunk 18 (RSP11038)
  7. 0.419 Hermaphrodite Research Sample1 (RSP11049)
  8. 0.416 RKM-2018-009 (RSP11100)
  9. 0.414 RKM-2018-006 (RSP11097)
  10. 0.411 JL yellow (RSP11075)
  11. 0.405 RKM-2018-032 (RSP11124)
  12. 0.404 Cbot-2019-001 (RSP11129)
  13. 0.400 RKM-2018-005 (RSP11096)
  14. 0.396 Italian Kiss (RSP11034)
  15. 0.396 Blue Dream (RSP11033)
  16. 0.396 RKM-2018-033 (RSP11125)
  17. 0.395 RKM-2018-027 (RSP11119)
  18. 0.392 RKM-2018-026 (RSP11118)
  19. 0.389 RKM-2018-022 (RSP11114)
  20. 0.389 Black Beauty (RSP11035)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4450096
Overlapping SNPs:
86
Concordance:
49

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495251
Overlapping SNPs:
3
Concordance:
2

Blockchain Registration Information

SHASUM Hash
902d18c983d9ded6620aeefcc8845003f2e779d718e94600ee2a091fc1e2deba
QR code for RSP11615

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