Carmagnola
RSP 10978
General Information
- Sample Name
- Carm_3_2_CSU
- Accession Date
- July 16, 2017
- Reported Plant Sex
- Female
- Report Type
- StrainSEEK v2 3.2Mb
- DNA Extracted From
- Unknown
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.
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.
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.
![](https://kannapedia.nyc3.cdn.digitaloceanspaces.com/media/reports/gender/rsp10978-gender-y-ratio.png)
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).
![](https://kannapedia.nyc3.cdn.digitaloceanspaces.com/media/reports/gene-coverage/rsp10978-gene-depth-active-cbdas.png)
![](https://kannapedia.nyc3.cdn.digitaloceanspaces.com/media/reports/gene-coverage/rsp10978-gene-depth-active-thcas.png)
![](https://kannapedia.nyc3.cdn.digitaloceanspaces.com/media/reports/gene-coverage/rsp10978-gene-depth-inactive-cbdas.png)
This chart represents the Illumina sequence coverage over the CBCA synthase gene.
![](https://kannapedia.nyc3.cdn.digitaloceanspaces.com/media/reports/gene-coverage/rsp10978-gene-depth-cbcas.png)
Variants (THCAS, CBDAS, and CBCAS)
No variants to report
Variants (Select Genes of Interest)
PKSG-2a | c.67T>A | p.Phe23Ile | missense variant | moderate | contig700 | 1945567 | A/T | |
PKSG-2b | c.1152T>A | p.Asn384Lys | missense variant | moderate | contig700 | 1950486 | A/T | |
PKSG-2b | c.31A>T | p.Thr11Ser | missense variant | moderate | contig700 | 1951851 | T/A | |
aPT4 | c.757G>T | p.Val253Leu | missense variant | moderate | contig121 | 2831364 | G/T |
|
aPT1 |
c.95_97delGT |
p.Cys32del | disruptive inframe deletion | moderate | contig121 | 2835800 | ATGT/A | |
aPT1 | c.406A>G | p.Ile136Val | missense variant | moderate | contig121 | 2839605 | A/G | |
aPT1 | c.574A>T | p.Met192Leu | missense variant | moderate | contig121 | 2840182 | A/T |
|
aPT1 | c.629C>T | p.Thr210Ile | missense variant | moderate | contig121 | 2840237 | C/T | |
aPT1 | c.727G>T | p.Glu243* | stop gained | high | contig121 | 2841362 | G/T | |
HDS-2 |
c.82_93delGT |
p.Val28_Thr3 |
conservative inframe deletion | moderate | contig95 | 1989748 |
CGTAACCGGAAC |
|
HDS-2 | c.679G>C | p.Gly227Arg | missense variant | moderate | contig95 | 1990632 | G/C |
|
Nearest genetic relatives (All Samples)
- 0.003 Carmagnola (RSP10979)
- 0.003 Carmagnola (RSP10976)
- 0.008 Carmagnola (RSP11202)
- 0.112 Carmagnola (RSP10655)
- 0.136 Carmagnola (RSP10982)
- 0.145 Carmagnola (RSP11039)
- 0.145 Carmagnola (RSP11037)
- 0.146 Carmagnola (RSP10980)
- 0.151 Carmagnola (RSP10977)
- 0.160 Carmagnola USO 31 (RSP11204)
- 0.198 Tisza (RSP11044)
- 0.200 Kompolti (SRR14708277)
- 0.203 Tisza (RSP11045)
- 0.206 CS (RSP11208)
- 0.207 Chamaeleon (SRR14708197)
- 0.211 VIR 37 - Novgorod-Seversky - cv (SRR14708234)
- 0.211 C-930 lot 211005 (RSP12603)
- 0.215 Santhica27 (RSP11047)
- 0.215 Uniko B (SRR14708278)
- 0.215 Santhica27 (RSP10056)
Most genetically distant strains (All Samples)
- 0.424 Cherry Blossom (RSP11318)
- 0.423 Cherry Blossom (RSP11312)
- 0.421 Cherry Blossom (RSP11323)
- 0.416 BagSeed (RSP12627)
- 0.414 Unknown--Cherry Wine---001- (RSP11268)
- 0.414 Cherry Blossom (RSP11311)
- 0.412 Cherry Blossom (RSP11328)
- 0.410 Cherry Blossom (RSP11300)
- 0.409 Cherry Blossom (RSP11308)
- 0.407 Cherry Blossom (RSP11298)
- 0.405 Cherry Blossom (RSP11334)
- 0.405 Cherry Blossom (RSP11301)
- 0.405 Cherry Blossom (RSP11335)
- 0.404 Escape Velocity (RSP11165)
- 0.402 Chem 91 (RSP11185)
- 0.402 JL Cross 14 (RSP11515)
- 0.399 Northern Lights (RSP11501)
- 0.397 Cherry Blossom (RSP11332)
- 0.396 Queen Dream (RSP11278)
- 0.395 Goin Bananas (RSP12509)
Nearest genetic relative in Phylos dataset
- Overlapping SNPs:
- 47
- Concordance:
- 30
Nearest genetic relative in Lynch dataset
- Overlapping SNPs:
- 2
- Concordance:
- 2
Blockchain Registration Information
- Transaction ID
-
0e5427a505965ee3
2309dca420eb8965 a1c8f0ad6ab77f7b de888518fef077fc - Stamping Certificate
- Download PDF (862.0 KB)
- SHASUM Hash
-
73fd908c7b1cd24d
b89166c71ec65859 8f6cca98806a8fd9 c6ca4ca74ae7b00a