PG

RSP 12928

Grower: Zamir Punja

General Information

Sample Name
PG - roots from veg plant
Accession Date
September 27, 2023
Reported Plant Sex
Female
Microbiome
Krona Plot

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: 1.09%
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: 0.0262
male female RSP12928

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)

THCAS c.1625C>T p.Pro542Leu missense variant moderate contig741 4416203

IGV: Start, Jump

G/A
NGS:
0.018
C90:
0.000
THCAS c.998C>G p.Pro333Arg missense variant moderate contig741 4416830

IGV: Start, Jump

G/C
NGS:
0.182
C90:
0.000
THCAS c.187A>C p.Ile63Leu missense variant moderate contig741 4417641

IGV: Start, Jump

T/G
NGS:
0.059
C90:
0.679

Variants (Select Genes of Interest)

EMF1-2

UniProt

c.710A>C p.His237Pro missense variant moderate contig885 810

IGV: Start, Jump

A/C
NGS:
0.090
C90:
0.474
PKSG-2a

UniProt

c.948T>G p.Asp316Glu missense variant moderate contig700 1944442

IGV: Start, Jump

A/C
NGS:
0.079
C90:
0.000
PKSG-2a

UniProt

c.945T>G p.Ser315Arg missense variant moderate contig700 1944445

IGV: Start, Jump

A/C
NGS:
0.079
C90:
0.000
PKSG-2a

UniProt

c.944G>A p.Ser315Asn missense variant moderate contig700 1944446

IGV: Start, Jump

C/T
NGS:
0.079
C90:
0.000
PKSG-2a

UniProt

c.934C>G p.His312Asp missense variant moderate contig700 1944456

IGV: Start, Jump

G/C
NGS:
0.070
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-4b

UniProt

c.535_545delATTGGAGTGGG p.Ile179fs frameshift variant high contig700 2721127

IGV: Start, Jump

CCCCACTCCAAT/C
NGS:
0.105
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.419A>G p.Asp140Gly missense variant moderate contig700 2721254

IGV: Start, Jump

T/C
NGS:
0.430
C90:
0.440
PKSG-4b

UniProt

c.316+2T>A splice donor variant & intron variant high contig700 2723818

IGV: Start, Jump

A/T
NGS:
0.070
C90:
0.689
ELF3

UniProt

c.358G>A p.Gly120Arg missense variant moderate contig97 242064

IGV: Start, Jump

G/A
NGS:
0.099
C90:
0.493
ELF3

UniProt

c.574A>G p.Asn192Asp missense variant moderate contig97 242280

IGV: Start, Jump

A/G
NGS:
0.042
C90:
0.579
ELF3

UniProt

c.772A>G p.Ser258Gly missense variant moderate contig97 242478

IGV: Start, Jump

A/G
NGS:
0.112
C90:
0.000
ELF3

UniProt

c.812G>C p.Gly271Ala missense variant moderate contig97 242518

IGV: Start, Jump

G/C
NGS:
0.114
C90:
0.938
ELF3

UniProt

c.2140C>T p.Pro714Ser missense variant moderate contig97 244971

IGV: Start, Jump

C/T
NGS:
0.018
C90:
0.038
ELF3

UniProt

c.2141C>G p.Pro714Arg missense variant moderate contig97 244972

IGV: Start, Jump

C/G
NGS:
0.088
C90:
0.335
ELF3

UniProt

c.2198G>T p.Arg733Leu missense variant moderate contig97 245029

IGV: Start, Jump

G/T
NGS:
0.125
C90:
0.531
aPT4

UniProt

c.16G>A p.Val6Ile missense variant moderate contig121 2828672

IGV: Start, Jump

G/A
NGS:
0.158
C90:
0.000
aPT4

UniProt

c.35A>C p.Gln12Pro missense variant moderate contig121 2828691

IGV: Start, Jump

A/C
NGS:
0.075
C90:
0.000
aPT4

UniProt

c.216A>T p.Lys72Asn missense variant moderate contig121 2828872

IGV: Start, Jump

A/T
NGS:
0.075
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
AAE1-2

UniProt

c.311A>G p.Asn104Ser missense variant moderate contig81 209273

IGV: Start, Jump

A/G
NGS:
0.004
C90:
0.000
AAE1-2

UniProt

c.331A>G p.Asn111Asp missense variant moderate contig81 209293

IGV: Start, Jump

A/G
NGS:
0.123
C90:
0.000
AAE1-2

UniProt

c.374A>G p.His125Arg missense variant moderate contig81 209336

IGV: Start, Jump

A/G
NGS:
0.026
C90:
0.000
AAE1-2

UniProt

c.948_949insA p.Asp317fs frameshift variant high contig81 209910

IGV: Start, Jump

C/CA
NGS:
0.050
C90:
0.000
AAE1-2

UniProt

c.1090A>G p.Lys364Glu missense variant moderate contig81 210052

IGV: Start, Jump

A/G
NGS:
0.007
C90:
0.000
FAD4

UniProt

c.121G>T p.Val41Phe missense variant moderate contig784 1690873

IGV: Start, Jump

G/T
NGS:
0.044
C90:
0.000
HDS-1

UniProt

c.1618A>G p.Ile540Val missense variant moderate contig1891 885936

IGV: Start, Jump

T/C
NGS:
0.099
C90:
0.861
HDS-1

UniProt

c.56C>G p.Ala19Gly missense variant moderate contig1891 889336

IGV: Start, Jump

G/C
NGS:
0.125
C90:
0.943
HDS-1

UniProt

c.35G>A p.Cys12Tyr missense variant moderate contig1891 889357

IGV: Start, Jump

C/T
NGS:
0.094
C90:
0.646
HDS-1

UniProt

c.-108+1_-108+2insG splice donor variant & intron variant high contig1891 889975

IGV: Start, Jump

A/AC
NGS:
0.217
C90:
0.000
FLD

UniProt

c.2929T>C p.Phe977Leu missense variant moderate contig1450 2044103

IGV: Start, Jump

A/G
NGS:
0.026
C90:
0.349
GGR

UniProt

c.362A>T p.Tyr121Phe missense variant moderate contig2282 549354

IGV: Start, Jump

A/T
NGS:
0.029
C90:
0.000
GGR

UniProt

c.456T>A p.His152Gln missense variant moderate contig2282 549448

IGV: Start, Jump

T/A
NGS:
0.068
C90:
0.000
GGR

UniProt

c.460G>A p.Asp154Asn missense variant moderate contig2282 549452

IGV: Start, Jump

G/A
NGS:
0.070
C90:
0.000
GGR

UniProt

c.679G>A p.Glu227Lys missense variant moderate contig2282 549671

IGV: Start, Jump

G/A
NGS:
0.018
C90:
0.000
GGR

UniProt

c.704A>T p.His235Leu missense variant moderate contig2282 549696

IGV: Start, Jump

A/T
NGS:
0.121
C90:
0.000
PKSB-3

UniProt

c.1652A>G p.Glu551Gly missense variant moderate contig93 3339759

IGV: Start, Jump

A/G
NGS:
0.088
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.067 0.133 0.200 0.267
clone distance sibling distance more distant
  1. 0.062 PG (RSP12934)
  2. 0.219 JL Cross 1 (RSP11502)
  3. 0.222 JFG (RSP12927)
  4. 0.225 Powdered Donuts (RSP12939)
  5. 0.230 JFG (RSP12933)
  6. 0.233 BF (RSP12931)
  7. 0.242 Old Family Purple (RSP12098)
  8. 0.247 RKM-2018-010 (RSP11101)
  9. 0.248 Sunday Driver (RSP11071)
  10. 0.248 Center Mark (RSP11629)
  11. 0.250 JL Cross 13 (RSP11514)
  12. 0.250 Hermaphrodite Research Sample1 (RSP11042)
  13. 0.251 T S A G E (RSP11351)
  14. 0.251 Blue Dream (RSP11010)
  15. 0.252 Blue Dream (RSP11017)
  16. 0.252 D1 (RSP12875)
  17. 0.253 BF (RSP12937)
  18. 0.254 El Gordo (RSP12938)
  19. 0.255 Blue Dream (RSP11007)
  20. 0.255 Blue Dream (RSP11004)

Nearest genetic relatives (Base Tree)

0 0.083 0.167 0.250 0.333
clone distance sibling distance more distant
  1. 0.256 Hermaphrodite Research Sample1 (RSP11049)
  2. 0.272 UP Sunrise (RSP10989)
  3. 0.277 Blue Dream (RSP11033)
  4. 0.278 RKM-2018-018 (RSP11110)
  5. 0.279 RKM-2018-006 (RSP11097)
  6. 0.281 Blueberry Cheesecake (RSP10684)
  7. 0.282 Hermaphrodite ResearchSample2 (RSP11050)
  8. 0.283 Italian Kiss (RSP11034)
  9. 0.285 RKM-2018-009 (RSP11100)
  10. 0.287 RKM-2018-028 (RSP11120)
  11. 0.289 Sour Raspberry (RSP10551)
  12. 0.297 CST (RSP11002)
  13. 0.298 Liberty Haze (RSP11000)
  14. 0.299 RKM-2018-033 (RSP11125)
  15. 0.306 Gold Cracker (RSP11048)
  16. 0.310 RKM-2018-003 (RSP11094)
  17. 0.314 Queen Jesus (RSP10105)
  18. 0.314 Blueberry Cheesecake (RSP10680)
  19. 0.315 Pie Hoe (RSP11073)
  20. 0.315 Cbot-2019-004 (RSP11132)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.466 Cherry Blossom (RSP11311)
  2. 0.466 Cherry Blossom (RSP11317)
  3. 0.457 Cherry Blossom (RSP11328)
  4. 0.453 Cherry Blossom (RSP11335)
  5. 0.453 Cherry Blossom (RSP11308)
  6. 0.451 Cherry Blossom (RSP11334)
  7. 0.444 Cherry Blossom (RSP11314)
  8. 0.440 Cherry Blossom (RSP11298)
  9. 0.431 Feral (RSP11205)
  10. 0.429 Cherry Blossom (RSP11330)
  11. 0.429 CS Indica (RSP11658)
  12. 0.428 CS (RSP11208)
  13. 0.428 Cherry Blossom (RSP11323)
  14. 0.428 Cherry Blossom (RSP11312)
  15. 0.427 Candy Kush (RSP11492)
  16. 0.426 Unknown- Cherry Wine - 003 (RSP11270)
  17. 0.425 Cherry Blossom (RSP11333)
  18. 0.423 HM (RSP12940)
  19. 0.422 Cherry Blossom (RSP11324)
  20. 0.420 Cherry Blossom (RSP11309)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.405 KYRG-11 (RSP11051)
  2. 0.403 USO 31 (RSP10981)
  3. 0.400 Monoica (RSP10241)
  4. 0.400 Feral (RSP10890)
  5. 0.395 Futura 75 (RSP10664)
  6. 0.391 Carmagnola (RSP11037)
  7. 0.389 Fedora 17 (RSP10661)
  8. 0.386 Kyrgyz Gold (RSP11054)
  9. 0.385 Kush Hemp E1 (RSP11128)
  10. 0.384 Tygra (RSP10667)
  11. 0.382 Lovrin (RSP10658)
  12. 0.382 Cbot-2019-005 (RSP11133)
  13. 0.382 Cherry (RSP11142)
  14. 0.376 Santhica27 (RSP11047)
  15. 0.374 Cherry (RSP11143)
  16. 0.374 Carmagnola (RSP10979)
  17. 0.373 Tisza (RSP11044)
  18. 0.367 RKM-2018-026 (RSP11118)
  19. 0.360 Ivory (RSP10668)
  20. 0.357 RKM-2018-022 (RSP11114)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8346778
Overlapping SNPs:
95
Concordance:
62

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495243
Overlapping SNPs:
6
Concordance:
6

Blockchain Registration Information

Transaction ID
1e0458f29d7505e570cf4dca42f474b0a40b5f5b90f56838a597b0854b99481a
Stamping Certificate
Download PDF (39.5 KB)
SHASUM Hash
fa7ec322c9b1f89b676d0bc31a9b64cd922e62ddcfa130112800b4f8c58b63be
QR code for RSP12928

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