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Kompolti_2

SRR 3294460

Grower: University of Colorado Boulder, John Mendieta

General Information

Accession Date
February 7, 2016
Reported Plant Sex
Hermaphrodite

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: Common
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

File Downloads

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: 1.84%
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: 0.0631
male female SRR3294460

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)
PHL-2 c.2467T>C p.Ser823Pro missense variant moderate contig2621 342510

IGV: Start, Jump

T/C
NGS:
0.000
C90:
0.000
PHL-2 c.3033T>G p.Cys1011Trp missense variant moderate contig2621 343076

IGV: Start, Jump

T/G
NGS:
0.055
C90:
0.292
PHL-2 c.3209A>G p.Gln1070Arg missense variant moderate contig2621 343252

IGV: Start, Jump

A/G
NGS:
0.103
C90:
0.885
AAE1-2

UniProt

c.285_290dupCTCATC p.Ser96_Ser97dup disruptive inframe insertion moderate contig81 209243

IGV: Start, Jump

A/AATCCTC
NGS:
0.002
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
AAE1-3

UniProt

c.659G>A p.Arg220Gln missense variant moderate contig976 1083195

IGV: Start, Jump

C/T
NGS:
0.077
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.033 0.067 0.100 0.133
closely related moderately related distantly related
  1. 0.054 Blue Dream (RSP11010)
  2. 0.057 SourD (RSP12092)
  3. 0.083 Blue Dream (RSP11008)
  4. 0.083 UC 86 (SRR14419663)
  5. 0.086 B52 (SRR14708255)
  6. 0.091 Suver Haze (RSP11364)
  7. 0.091 Strawnana (RSP12094)
  8. 0.096 Golden Goat 2 (RSP10991)
  9. 0.100 UC 74 (SRR14419674)
  10. 0.103 UC 32 (SRR14419761)
  11. 0.103 UC 21 (SRR14419861)
  12. 0.104 NSPM1 (RSP11362)
  13. 0.104 Super Blue Dream (RSP11011)
  14. 0.107 UC 167 (SRR14419585)
  15. 0.109 VIR 483 (SRR14708238)
  16. 0.109 Juso14 (SRR14708259)
  17. 0.111 Triangle Kush x Square Wave BX (RSP12100)
  18. 0.111 UC 445 (SRR14419766)
  19. 0.113 East side OG (RSP12089)
  20. 0.113 Alpine Rocket (SRR14708266)

Most genetically distant strains (All Samples)

0 0.100 0.200 0.300 0.400
closely related moderately related distantly related
  1. 0.396 80E (RSP11213)
  2. 0.378 JL 3rd Gen Mother (RSP11214)
  3. 0.377 JL yellow (RSP11075)
  4. 0.375 80E (RSP11212)
  5. 0.363 80E (RSP11211)
  6. 0.352 Fedora 17 (RSP10661)
  7. 0.350 Chematonic Cannatonic x Chemdawg (RSP11394)
  8. 0.333 RKM-2018-024 (RSP11116)
  9. 0.324 JL 4th Gen 2 (RSP11194)
  10. 0.317 Cbot-2019-005 (RSP11133)
  11. 0.315 JL 4th Gen 5 (RSP11199)
  12. 0.304 Danny Noonan (RSP11070)
  13. 0.304 JL 3rd Gen Father (RSP11196)
  14. 0.304 Chem 91 (RSP11185)
  15. 0.304 IUP2 (SRR14708257)
  16. 0.303 Ringo s Gift Katie s Cut (RSP11624)
  17. 0.303 JL 2 (RSP11076)
  18. 0.303 Cherry Blossom (RSP11323)
  19. 0.301 Cherry Blossom (RSP11318)
  20. 0.301 Northern Lights (RSP11501)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4448387
Overlapping SNPs:
4
Concordance:
4

Blockchain Registration Information

SHASUM Hash
feba681eefc767abbc82c12f3b86cb9605a60ba67cdfca7ffdf70edc389ac0d5
QR code for SRR3294460

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