Advanced Strain Search

Carmagnola

RSP 10655

Grower: CSU

General Information

Sample Name
Carmagnola 5
Accession Date
February 14, 2017
Reported Plant Sex
Female
DNA Extracted From
Leaf

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 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: 1.15%
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: 0.0443
male female RSP10655

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)

Gene HGVS.c HGVS.p Annotation Annotation Impact Contig Contig Pos Ref/Alt Var Freq
CBDAS c.221C>G p.Thr74Ser missense variant moderate contig1772 2082447

IGV: Start, Jump

C/G
NGS:
0.136
C90:
0.057

Variants (Select Genes of Interest)
PKSG-2a

UniProt

c.1117A>G p.Ile373Val missense variant moderate contig700 1944273

IGV: Start, Jump

T/C
NGS:
0.101
C90:
0.967
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.1117A>G p.Ile373Val missense variant moderate contig700 1950521

IGV: Start, Jump

T/C
NGS:
0.807
C90:
0.981
aPT1

UniProt

c.95_97delGTT p.Cys32del disruptive inframe deletion moderate contig121 2835800

IGV: Start, Jump

ATGT/A
NGS:
0.118
C90:
0.311
aPT1

UniProt

c.406A>G p.Ile136Val missense variant moderate contig121 2839605

IGV: Start, Jump

A/G
NGS:
0.579
C90:
0.761
aPT1

UniProt

c.574A>T p.Met192Leu missense variant moderate contig121 2840182

IGV: Start, Jump

A/T
NGS:
0.024
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
aPT1

UniProt

c.727G>T p.Glu243* stop gained high contig121 2841362

IGV: Start, Jump

G/T
NGS:
0.127
C90:
0.100

Nearest genetic relatives (All Samples)

0 0.058 0.117 0.175 0.233
closely related moderately related distantly related
  1. 0.106 Carmagnola (RSP10976)
  2. 0.111 Carmagnola (RSP10979)
  3. 0.113 Carmagnola (RSP10978)
  4. 0.123 Carmagnola (RSP11202)
  5. 0.135 Carmagnola (RSP11039)
  6. 0.137 Carmagnola (RSP10982)
  7. 0.139 Carmagnola (RSP10980)
  8. 0.140 Carmagnola (RSP10977)
  9. 0.141 Carmagnola (RSP11037)
  10. 0.174 CS (RSP11208)
  11. 0.183 Carmagnola USO 31 (RSP11204)
  12. 0.199 VIR 37 - Novgorod-Seversky - cv (SRR14708234)
  13. 0.211 Futura 75 (RSP10664)
  14. 0.215 Santhica27 (RSP10056)
  15. 0.223 Santhica27 (RSP11047)
  16. 0.223 VIR 469 (SRR14708243)
  17. 0.224 Tisza (RSP11044)
  18. 0.225 KYRG-151 (RSP11052)
  19. 0.225 Chamaeleon (SRR14708197)
  20. 0.225 Diana (RSP10235)

Most genetically distant strains (All Samples)

0 0.108 0.217 0.325 0.433
closely related moderately related distantly related
  1. 0.432 Cherry Blossom (RSP11323)
  2. 0.428 Cherry Blossom (RSP11301)
  3. 0.426 Cherry Blossom (RSP11328)
  4. 0.419 Cherry Blossom (RSP11298)
  5. 0.414 Cherry Blossom (RSP11312)
  6. 0.411 Cherry Blossom (RSP11311)
  7. 0.411 Cherry Blossom (RSP11309)
  8. 0.410 Cherry Blossom (RSP11334)
  9. 0.410 Queen Dream (RSP11278)
  10. 0.409 Cherry Blossom (RSP11308)
  11. 0.409 Chem 91 (RSP11185)
  12. 0.406 Cherry Blossom (RSP11335)
  13. 0.406 Cherry Blossom (RSP11318)
  14. 0.405 Queen Dream CBG (RSP11293)
  15. 0.405 JL Cross 14 (RSP11515)
  16. 0.404 Escape Velocity (RSP11165)
  17. 0.403 Northern Skunk (RSP11456)
  18. 0.403 Cherry Blossom (RSP11300)
  19. 0.402 New York City Deisel (RSP11225)
  20. 0.402 RKM-2018-002 (RSP11093)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4448780
Overlapping SNPs:
49
Concordance:
31

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495248
Overlapping SNPs:
4
Concordance:
4

Blockchain Registration Information

Transaction ID
3c875efc7f37d0078da39ff968da5740cdf3354dbcf71082f45820c042e2ab9b
Stamping Certificate
Download PDF (853.9 KB)
SHASUM Hash
8de9d897b1390995e1d386d799d1bebd7ab1273be858c0ac78a8fc79e8487319
QR code for RSP10655

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