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. 0.193 AVIDEKEL USA (RSP11169)
  2. 0.197 Midnight 05MAY2017 (RSP10941)
  3. 0.214 FL30 7 11 2019 (RSP11361)
  4. 0.214 RAPHAEL #2 (RSP11172)
  5. 0.219 Cbot-2019-003 (RSP11131)
  6. 0.220 Electra (RSP11366)
  7. 0.227 Wife (RSP11148)
  8. 0.228 Cherry Wine (RSP11145)
  9. 0.229 RAPHAEL #4 (RSP11173)
  10. 0.230 Badger (RSP11614)
  11. 0.235 Queen Dream CBG (RSP11283)
  12. 0.237 Suver Haze (RSP11364)
  13. 0.240 Lift (RSP11378)
  14. 0.241 Hot Blonde (RSP11292)
  15. 0.244 Cherry Blossom (RSP11312)
  16. 0.244 13 Cherries (RSP11442)
  17. 0.246 Doug s Varin (RSP11243)
  18. 0.246 CANNATONIC (RSP11349)
  19. 0.246 Joy (RSP11380)
  20. 0.248 Otto (RSP11147)

Nearest genetic relatives (Base Tree)

0 0.092 0.183 0.275 0.367
clone distance sibling distance more distant
  1. 0.276 Durban Poison (RSP11014)
  2. 0.279 Cbot-2019-001 (RSP11129)
  3. 0.281 Blueberry Cheesecake (RSP10684)
  4. 0.282 Cherry (RSP11143)
  5. 0.306 Blueberry Cheesecake (RSP10672)
  6. 0.308 Liberty Haze (RSP11000)
  7. 0.308 UP Sunrise (RSP10989)
  8. 0.309 Queen Jesus (RSP10105)
  9. 0.312 Cbot-2019-004 (RSP11132)
  10. 0.321 RKM-2018-003 (RSP11094)
  11. 0.321 Golden Goat 2 (RSP10991)
  12. 0.322 Cbot-2019-005 (RSP11133)
  13. 0.325 CST (RSP11002)
  14. 0.349 RKM-2018-020 (RSP11112)
  15. 0.350 Recon (RSP10755)
  16. 0.353 RKM-2018-027 (RSP11119)
  17. 0.359 RKM-2018-023 (RSP11115)
  18. 0.361 Hermaphrodite Research Sample1 (RSP11049)
  19. 0.364 RKM-2018-018 (RSP11110)
  20. 0.367 Cherry (RSP11142)

Most genetically distant strains (All Samples)

0 0.125 0.250 0.375 0.500
clone distance sibling distance more distant
  1. 0.483 80E (RSP11213)
  2. 0.475 80E (RSP11212)
  3. 0.475 Fatso (RSP11741)
  4. 0.473 80E (RSP11211)
  5. 0.466 Chem 91 (RSP11185)
  6. 0.462 RKM-2018-026 (RSP11118)
  7. 0.459 GMO x Garlic Breath (RSP12507)
  8. 0.458 Star Dawg (RSP11352)
  9. 0.458 Abacus (RSP11266)
  10. 0.450 JL yellow (RSP11075)
  11. 0.450 GMO x Zkittlez #43 (RSP11976)
  12. 0.449 Right Mark (RSP11628)
  13. 0.448 Red Eye OG (RSP11190)
  14. 0.444 GMO (RSP12091)
  15. 0.444 Cherry Blossom (RSP11333)
  16. 0.443 GG4 (RSP11978)
  17. 0.443 White Label 1 (RSP11336)
  18. 0.438 R1in136 (SRR14708226)
  19. 0.436 Skywalker OG (RSP10837)
  20. 0.436 Rugburn OG (RSP11353)

Most genetically distant strains (Base Tree)

0 0.125 0.250 0.375 0.500
clone distance sibling distance more distant
  1. 0.468 RKM-2018-026 (RSP11118)
  2. 0.448 JL yellow (RSP11075)
  3. 0.448 Skywalker OG (RSP10837)
  4. 0.436 RKM-2018-009 (RSP11100)
  5. 0.429 Monoica (RSP10241)
  6. 0.425 RKM-2018-032 (RSP11124)
  7. 0.423 Carmagnola (RSP11037)
  8. 0.421 Cbot-2019-006 (RSP11134)
  9. 0.420 Feral (RSP10890)
  10. 0.419 Kush Hemp E1 (RSP11128)
  11. 0.419 RKM-2018-034 (RSP11126)
  12. 0.415 RKM-2018-002 (RSP11093)
  13. 0.413 RKM-2018-019 (RSP11111)
  14. 0.410 Lovrin (RSP10658)
  15. 0.409 RKM-2018-004 (RSP11096)
  16. 0.409 Ivory (RSP10668)
  17. 0.408 The Gift (RSP10988)
  18. 0.407 USO 31 (RSP10981)
  19. 0.407 Santhica27 (RSP11047)
  20. 0.404 Jiangji (RSP10653)

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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