Avidekel_05MAY2017

RSP 10938

Grower: DigiPath Labs

General Information

Accession Date
May 4, 2017
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

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: 1.09%
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: 0.0421
male female RSP10938

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.67T>A p.Phe23Ile missense variant moderate contig700 1945567

IGV: Start, Jump

A/T
NGS:
0.825
C90:
0.904
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.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.496A>G p.Lys166Glu missense variant moderate contig700 2721177

IGV: Start, Jump

T/C
NGS:
0.651
C90:
0.684
PKSG-4b

UniProt

c.492G>C p.Glu164Asp missense variant moderate contig700 2721181

IGV: Start, Jump

C/G
NGS:
0.048
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.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.419A>G p.Asp140Gly missense variant moderate contig700 2721254

IGV: Start, Jump

T/C
NGS:
0.430
C90:
0.440
DXR-1

UniProt

c.20G>T p.Cys7Phe missense variant moderate contig380 235947

IGV: Start, Jump

C/A
NGS:
0.020
C90:
0.000
DXR-2

UniProt

c.1140A>C p.Lys380Asn missense variant moderate contig380 285582

IGV: Start, Jump

T/G
NGS:
0.018
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 0.067 0.133 0.200 0.267
clone distance sibling distance more distant
  1. 0.187 Midnight (RSP10941)
  2. 0.200 AVIDEKEL USA (RSP11169)
  3. 0.205 RAPHAEL 2 (RSP11172)
  4. 0.220 Queen Dream CBG (RSP11283)
  5. 0.220 FL30 (RSP11361)
  6. 0.222 Cbot-2019-003 (RSP11131)
  7. 0.222 RAPHAEL 4 (RSP11173)
  8. 0.223 Wife (RSP11148)
  9. 0.231 Hot Blonde (RSP11292)
  10. 0.234 Cherry Blossom (RSP11312)
  11. 0.235 Durban Poison 1 (RSP11013)
  12. 0.238 Hot Blonde (RSP11290)
  13. 0.240 Queen Dream CBG (RSP11295)
  14. 0.242 CANNATONIC (RSP11349)
  15. 0.243 Cherry Wine (RSP11305)
  16. 0.244 Cherry Wine (RSP11307)
  17. 0.245 Cherry Wine (RSP11145)
  18. 0.249 Durban Poison 1 (RSP10996)
  19. 0.253 Queen Dream CBG (RSP11294)
  20. 0.258 RINGO S ANGEL (RSP10085)

Nearest genetic relatives (Base Tree)

0 0.100 0.200 0.300 0.400
clone distance sibling distance more distant
  1. 0.268 Blueberry Cheesecake (RSP10684)
  2. 0.274 Durban Poison (RSP11014)
  3. 0.276 Cherry (RSP11143)
  4. 0.280 Cbot-2019-001 (RSP11129)
  5. 0.303 Liberty Haze (RSP11000)
  6. 0.306 Cbot-2019-004 (RSP11132)
  7. 0.320 Cbot-2019-005 (RSP11133)
  8. 0.321 Blueberry Cheesecake (RSP10672)
  9. 0.328 RKM-2018-003 (RSP11094)
  10. 0.328 Golden Goat 2 (RSP10991)
  11. 0.333 QUEEN JESUS (RSP10105)
  12. 0.342 UP Sunrise (RSP10989)
  13. 0.348 CST (RSP11002)
  14. 0.363 Tygra (RSP10667)
  15. 0.363 Skunk 18 (RSP11038)
  16. 0.366 RKM-2018-027 (RSP11119)
  17. 0.366 Recon (RSP10755)
  18. 0.367 RKM-2018-020 (RSP11112)
  19. 0.367 RKM-2018-018 (RSP11110)
  20. 0.368 Cherry (RSP11142)

Most genetically distant strains (All Samples)

0 0.133 0.267 0.400 0.533
clone distance sibling distance more distant
  1. 0.505 80E (RSP11213)
  2. 0.496 80E (RSP11211)
  3. 0.483 80E (RSP11212)
  4. 0.479 Chem 91 (RSP11185)
  5. 0.473 RKM-2018-026 (RSP11118)
  6. 0.473 JL yellow (RSP11075)
  7. 0.466 Abacus (RSP11266)
  8. 0.463 Star Dawg (RSP11352)
  9. 0.456 JL 3rd Gen Mother (RSP11214)
  10. 0.445 Red Eye OG (RSP11190)
  11. 0.445 Rugburn OG (RSP11353)
  12. 0.442 RKM-2018-012 (RSP11103)
  13. 0.442 JL 4th Gen 2 (RSP11194)
  14. 0.442 Skywalker OG (RSP10837)
  15. 0.439 Cherry Blossom (RSP11333)
  16. 0.438 RKM-2018-009 (RSP11100)
  17. 0.438 White Label 1 (RSP11336)
  18. 0.437 SFVxTK (RSP11072)
  19. 0.437 Garlic (RSP11341)
  20. 0.435 Dominion Skunk (RSP11354)

Most genetically distant strains (Base Tree)

0 0.125 0.250 0.375 0.500
clone distance sibling distance more distant
  1. 0.474 RKM-2018-026 (RSP11118)
  2. 0.465 JL yellow (RSP11075)
  3. 0.452 Skywalker OG (RSP10837)
  4. 0.447 RKM-2018-009 (RSP11100)
  5. 0.432 Carmagnola (RSP11037)
  6. 0.430 Monoica (RSP10241)
  7. 0.422 Feral (RSP10890)
  8. 0.420 RKM-2018-019 (RSP11111)
  9. 0.418 Ivory (RSP10668)
  10. 0.417 Santhica27 (RSP11047)
  11. 0.416 Kush Hemp E1 (RSP11128)
  12. 0.415 RKM-2018-034 (RSP11126)
  13. 0.414 RKM-2018-032 (RSP11124)
  14. 0.413 Cbot-2019-006 (RSP11134)
  15. 0.413 RKM-2018-002 (RSP11093)
  16. 0.412 RKM-2018-005 (RSP11096)
  17. 0.411 Sour Raspberry (RSP10551)
  18. 0.409 RKM-2018-022 (RSP11114)
  19. 0.409 USO 31 (RSP10981)
  20. 0.406 Kyrgyz Gold (RSP11054)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8346396
Overlapping SNPs:
72
Concordance:
69

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495303
Overlapping SNPs:
3
Concordance:
3

Blockchain Registration Information

Transaction ID
13f5dcbf5a920635bbeb047a5fac34ecc27991decf43a99b4ca6c58046e4897f
Stamping Certificate
Download PDF (856.9 KB)
SHASUM Hash
fe6347b393b3fb6424716523b1c700eaac5e1d0a7724ace93897753e5417b388
QR code for RSP10938

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