PG

RSP 12934

Grower: Zamir Punja

General Information

Sample Name
PG - roots from flowering 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 I

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: 1.24%
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: 0.0175
male female RSP12934

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

IGV: Start, Jump

G/C
NGS:
0.070
C90:
0.000
PKSG-2b

UniProt

c.67A>T p.Ile23Phe missense variant moderate contig700 1951815

IGV: Start, Jump

T/A
NGS:
0.033
C90:
0.325
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.229G>A p.Gly77Ser missense variant moderate contig700 2724206

IGV: Start, Jump

C/T
NGS:
0.042
C90:
0.000
PKSG-4b

UniProt

c.216G>C p.Leu72Phe missense variant moderate contig700 2724219

IGV: Start, Jump

C/G
NGS:
0.044
C90:
0.000
PKSG-4b

UniProt

c.206T>C p.Leu69Ser missense variant moderate contig700 2724229

IGV: Start, Jump

A/G
NGS:
0.044
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.62C>T p.Pro21Leu missense variant moderate contig83 1803307

IGV: Start, Jump

G/A
NGS:
0.042
C90:
0.000
FAD2-2

UniProt

c.23G>A p.Ser8Asn missense variant moderate contig83 1803346

IGV: Start, Jump

C/T
NGS:
0.009
C90:
0.000
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.520A>C p.Asn174His missense variant moderate contig97 242226

IGV: Start, Jump

A/C
NGS:
0.094
C90:
0.502
ELF3

UniProt

c.1966C>G p.Pro656Ala missense variant moderate contig97 244797

IGV: Start, Jump

C/G
NGS:
0.123
C90:
0.632
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.216A>T p.Lys72Asn missense variant moderate contig121 2828872

IGV: Start, Jump

A/T
NGS:
0.075
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
AAE1-2

UniProt

c.133T>A p.Phe45Ile missense variant moderate contig81 209095

IGV: Start, Jump

T/A
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.948_949insA p.Asp317fs frameshift variant high contig81 209910

IGV: Start, Jump

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

UniProt

c.952delC p.Gln318fs frameshift variant high contig81 209912

IGV: Start, Jump

AC/A
NGS:
0.050
C90:
0.000
AAE1-2

UniProt

c.953A>G p.Gln318Arg missense variant moderate contig81 209915

IGV: Start, Jump

A/G
NGS:
0.050
C90:
0.000
AAE1-2

UniProt

c.1006A>G p.Lys336Glu missense variant moderate contig81 209968

IGV: Start, Jump

A/G
NGS:
0.116
C90:
0.000
PHL-1

UniProt

c.2623A>G p.Thr875Ala missense variant moderate contig1439 1487174

IGV: Start, Jump

T/C
NGS:
0.123
C90:
0.000
PHL-1

UniProt

c.977delC p.Pro326fs frameshift variant high contig1439 1490220

IGV: Start, Jump

TG/T
NGS:
0.000
C90:
0.000
HDS-1

UniProt

c.136G>A p.Val46Ile missense variant moderate contig1891 889256

IGV: Start, Jump

C/T
NGS:
0.088
C90:
0.593
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
EMF2

UniProt

c.1772A>G p.Gln591Arg missense variant moderate contig954 3059929

IGV: Start, Jump

A/G
NGS:
0.092
C90:
0.876
FT

UniProt

c.240C>G p.Asn80Lys missense variant moderate contig1561 3124664

IGV: Start, Jump

C/G
NGS:
0.075
C90:
0.000
FLD

UniProt

c.2981T>C p.Met994Thr missense variant moderate contig1450 2044012

IGV: Start, Jump

A/G
NGS:
0.064
C90:
0.478
FLD

UniProt

c.2964C>A p.Asp988Glu missense variant moderate contig1450 2044029

IGV: Start, Jump

G/T
NGS:
0.057
C90:
0.464
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.460G>A p.Asp154Asn missense variant moderate contig2282 549452

IGV: Start, Jump

G/A
NGS:
0.070
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 (RSP12928)
  2. 0.217 JFG (RSP12927)
  3. 0.218 JL Cross 1 (RSP11502)
  4. 0.221 Blue Dream (RSP11017)
  5. 0.221 Old Family Purple (RSP12098)
  6. 0.225 Blue Dream (RSP11010)
  7. 0.225 BF (RSP12931)
  8. 0.225 Powdered Donuts (RSP12939)
  9. 0.227 D1 (RSP12875)
  10. 0.232 Blue Dream (RSP11007)
  11. 0.232 T S A G E (RSP11351)
  12. 0.233 Domnesia (RSP11184)
  13. 0.234 Blue Dream (RSP11004)
  14. 0.234 Blue Dream (RSP11009)
  15. 0.234 Blue Dream (RSP11008)
  16. 0.234 Jasmine Silver Haze (RSP11979)
  17. 0.235 RKM-2018-010 (RSP11101)
  18. 0.235 Hermaphrodite Research Sample1 (RSP11042)
  19. 0.236 JFG (RSP12933)
  20. 0.236 JL Cross 13 (RSP11514)

Nearest genetic relatives (Base Tree)

0 0.075 0.150 0.225 0.300
clone distance sibling distance more distant
  1. 0.250 Hermaphrodite Research Sample1 (RSP11049)
  2. 0.258 UP Sunrise (RSP10989)
  3. 0.265 Blue Dream (RSP11033)
  4. 0.266 RKM-2018-009 (RSP11100)
  5. 0.268 Hermaphrodite ResearchSample2 (RSP11050)
  6. 0.269 RKM-2018-018 (RSP11110)
  7. 0.270 Blueberry Cheesecake (RSP10684)
  8. 0.276 RKM-2018-033 (RSP11125)
  9. 0.277 RKM-2018-006 (RSP11097)
  10. 0.279 Italian Kiss (RSP11034)
  11. 0.280 Liberty Haze (RSP11000)
  12. 0.283 RKM-2018-028 (RSP11120)
  13. 0.284 Gold Cracker (RSP11048)
  14. 0.287 Sour Raspberry (RSP10551)
  15. 0.289 CST (RSP11002)
  16. 0.290 RKM-2018-032 (RSP11124)
  17. 0.295 Durban Poison (RSP11014)
  18. 0.296 RKM-2018-020 (RSP11112)
  19. 0.299 Queen Jesus (RSP10105)
  20. 0.300 Blueberry Cheesecake (RSP10680)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.461 Cherry Blossom (RSP11311)
  2. 0.458 Cherry Blossom (RSP11328)
  3. 0.451 Cherry Blossom (RSP11317)
  4. 0.441 Cherry Blossom (RSP11334)
  5. 0.440 Cherry Blossom (RSP11298)
  6. 0.429 Cherry Blossom (RSP11314)
  7. 0.428 Cherry Blossom (RSP11308)
  8. 0.426 CS Indica (RSP11658)
  9. 0.426 Cherry Blossom (RSP11335)
  10. 0.424 Cherry Blossom (RSP11330)
  11. 0.424 Candy Kush (RSP11492)
  12. 0.421 Unknown- Cherry Wine - 003 (RSP11270)
  13. 0.419 Cherry Blossom (RSP11312)
  14. 0.418 Cherry Blossom (RSP11323)
  15. 0.416 Feral (RSP11205)
  16. 0.416 CS (RSP11208)
  17. 0.416 Tiger Tail 30 (RSP11484)
  18. 0.413 Cherry Blossom (RSP11309)
  19. 0.408 Carmaleonte (RSP11207)
  20. 0.404 Punta Roja (RSP12923)

Most genetically distant strains (Base Tree)

0 0.100 0.200 0.300 0.400
clone distance sibling distance more distant
  1. 0.398 Monoica (RSP10241)
  2. 0.397 KYRG-11 (RSP11051)
  3. 0.388 Futura 75 (RSP10664)
  4. 0.382 Feral (RSP10890)
  5. 0.378 Cbot-2019-005 (RSP11133)
  6. 0.377 Kyrgyz Gold (RSP11054)
  7. 0.376 USO 31 (RSP10981)
  8. 0.375 Carmagnola (RSP11037)
  9. 0.375 Cherry (RSP11142)
  10. 0.375 Fedora 17 (RSP10661)
  11. 0.370 Santhica27 (RSP11047)
  12. 0.369 Lovrin (RSP10658)
  13. 0.364 Kush Hemp E1 (RSP11128)
  14. 0.363 Cherry (RSP11143)
  15. 0.362 Tisza (RSP11044)
  16. 0.358 JL yellow (RSP11075)
  17. 0.356 Carmagnola (RSP10979)
  18. 0.350 Ivory (RSP10668)
  19. 0.348 RKM-2018-026 (RSP11118)
  20. 0.344 Tygra (RSP10667)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8349004
Overlapping SNPs:
96
Concordance:
61

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495226
Overlapping SNPs:
7
Concordance:
6

Blockchain Registration Information

Transaction ID
762ea82f7adf727940fd0d18a937a621df9e8dc7d12262484ff95b3e8b514058
Stamping Certificate
Download PDF (39.4 KB)
SHASUM Hash
9f6a2c8e68728aaa6ff6a88576fd6c5774b77b2cf01250a5eb8f04418ffa96f8
QR code for RSP12934

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