CDSD

RSP 12929

Grower: Zamir Punja

General Information

Sample Name
CDSD - 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: Uncommon
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: 1.09%
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: 0.0285
male female RSP12929

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.998C>G p.Pro333Arg missense variant moderate contig741 4416830

IGV: Start, Jump

G/C
NGS:
0.182
C90:
0.000
THCAS c.749C>A p.Ala250Asp missense variant moderate contig741 4417079

IGV: Start, Jump

G/T
NGS:
0.127
C90:
0.632

Variants (Select Genes of Interest)

PHL-2 c.1477_1480delGGGG p.Gly493fs frameshift variant high contig2621 340754

IGV: Start, Jump

TGGGG/T
NGS:
0.000
C90:
0.000
PHL-2 c.1480_1481insAAAA p.Val494fs frameshift variant high contig2621 340758

IGV: Start, Jump

G/GAAAA
NGS:
0.000
C90:
0.000
ELF3

UniProt

c.1630A>G p.Thr544Ala missense variant moderate contig97 244461

IGV: Start, Jump

A/G
NGS:
0.103
C90:
0.545
PHL-1

UniProt

c.1387A>G p.Thr463Ala missense variant moderate contig1439 1489811

IGV: Start, Jump

T/C
NGS:
0.107
C90:
0.904
HDS-1

UniProt

c.1378G>A p.Val460Ile missense variant moderate contig1891 886370

IGV: Start, Jump

C/T
NGS:
0.167
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.067 0.133 0.200 0.267
clone distance sibling distance more distant
  1. 0.111 CDSD (RSP12935)
  2. 0.184 Super Runtz (RSP12810)
  3. 0.189 Skywalker OG (RSP10837)
  4. 0.193 SFVxTK (RSP11072)
  5. 0.200 Absolute OG (RSP11455)
  6. 0.203 Red Eye OG (RSP11190)
  7. 0.204 Rootbeer Rolex 50 (RSP12645)
  8. 0.204 Purple Urkle (RSP12890)
  9. 0.209 East side OG (RSP12089)
  10. 0.210 RKM-2018-013 (RSP11104)
  11. 0.213 RKM-2018-026 (RSP11118)
  12. 0.216 East Coast Sour Diesel (RSP12922)
  13. 0.217 Gorilla Cookies (RSP11231)
  14. 0.220 Garlic (RSP11341)
  15. 0.222 Eucalyptus (RSP12803)
  16. 0.226 Fatso (RSP11741)
  17. 0.229 Champelli Red 4 (RSP12804)
  18. 0.229 Cherry Lime Runtz (RSP12486)
  19. 0.232 HM (RSP12941)
  20. 0.234 JFG (RSP12927)

Nearest genetic relatives (Base Tree)

0 0.092 0.183 0.275 0.367
clone distance sibling distance more distant
  1. 0.194 Skywalker OG (RSP10837)
  2. 0.220 RKM-2018-026 (RSP11118)
  3. 0.249 Pie Hoe (RSP11073)
  4. 0.266 RKM-2018-034 (RSP11126)
  5. 0.285 Hermaphrodite ResearchSample2 (RSP11050)
  6. 0.286 RKM-2018-002 (RSP11093)
  7. 0.290 The Gift (RSP10988)
  8. 0.291 Blueberry Cheesecake (RSP10680)
  9. 0.296 RKM-2018-004 (RSP11096)
  10. 0.297 Kimbo Slice (RSP10997)
  11. 0.305 RKM-2018-033 (RSP11125)
  12. 0.306 RKM-2018-020 (RSP11112)
  13. 0.317 Skunk 18 (RSP11038)
  14. 0.317 RKM-2018-032 (RSP11124)
  15. 0.320 Recon (RSP10755)
  16. 0.329 Hermaphrodite Research Sample1 (RSP11049)
  17. 0.332 Liberty Haze (RSP11000)
  18. 0.332 Tygra (RSP10667)
  19. 0.334 Blueberry Cheesecake (RSP10684)
  20. 0.338 RKM-2018-009 (RSP11100)

Most genetically distant strains (All Samples)

0 0.125 0.250 0.375 0.500
clone distance sibling distance more distant
  1. 0.493 Cherry Blossom (RSP11306)
  2. 0.486 Cherry Blossom (RSP11318)
  3. 0.482 Cherry Blossom (RSP11325)
  4. 0.471 Tanao Sri 46 (RSP11486)
  5. 0.471 Cherry Blossom (RSP11329)
  6. 0.469 Cherry Blossom (RSP11322)
  7. 0.467 Cherry Blossom (RSP11326)
  8. 0.462 Cherry Blossom (RSP11315)
  9. 0.460 Cherry Blossom (RSP11300)
  10. 0.458 Cherry Blossom (RSP11323)
  11. 0.455 Northern Skunk (RSP11456)
  12. 0.454 Cherry Blossom (RSP11274)
  13. 0.453 Jamaican Lion (RSP12916)
  14. 0.451 Unknown- Cherry Wine - 001 (RSP11268)
  15. 0.449 Wife (RSP11148)
  16. 0.447 AVIDEKEL 2 0 (RSP11174)
  17. 0.446 Cherry Blossom (RSP11302)
  18. 0.446 Unknown- Cherry Wine - 002 (RSP11269)
  19. 0.445 Cherry Blossom (RSP11319)
  20. 0.443 Brunswick High (RSP11164)

Most genetically distant strains (Base Tree)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.435 JL yellow (RSP11075)
  2. 0.426 Cherry (RSP11142)
  3. 0.407 Cbot-2019-005 (RSP11133)
  4. 0.406 Blueberry Cheesecake (RSP10672)
  5. 0.405 RKM-2018-006 (RSP11097)
  6. 0.403 Cherry (RSP11143)
  7. 0.399 RKM-2018-028 (RSP11120)
  8. 0.396 Black Beauty (RSP11035)
  9. 0.393 RKM-2018-022 (RSP11114)
  10. 0.393 RKM-2018-027 (RSP11119)
  11. 0.391 Cbot-2019-001 (RSP11129)
  12. 0.390 Italian Kiss (RSP11034)
  13. 0.390 Fedora 17 (RSP10661)
  14. 0.390 RKM-2018-023 (RSP11115)
  15. 0.386 Cbot-2019-004 (RSP11132)
  16. 0.385 RKM-2018-031 (RSP11123)
  17. 0.385 Carmagnola (RSP11037)
  18. 0.383 Kush Hemp E1 (RSP11128)
  19. 0.383 Futura 75 (RSP10664)
  20. 0.382 Monoica (RSP10241)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8349037
Overlapping SNPs:
88
Concordance:
63

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495250
Overlapping SNPs:
3
Concordance:
3

Blockchain Registration Information

Transaction ID
6b808a43ee267be4a19aec2311dc374b644c3753de6ccfe536c442351aa31e8c
Stamping Certificate
Download PDF (39.5 KB)
SHASUM Hash
b105dde134ff47a8c4b3d52dec20f27cf0d58dcbaa7780661303e32072e5064e
QR code for RSP12929

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