Advanced Strain Search

Santhica27

RSP 10056

Grower: CSU

General Information

Sample Name
Santhica27-1
Accession Date
January 26, 2016
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 IV

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: 1.16%
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: 0.0523
male female RSP10056

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)
PKSG-2a

UniProt

c.67T>A p.Phe23Ile missense variant moderate contig700 1945567

IGV: Start, Jump

A/T
NGS:
0.825
C90:
0.904
PKSG-2a

UniProt

c.31A>T p.Thr11Ser missense variant moderate contig700 1945603

IGV: Start, Jump

T/A
NGS:
0.763
C90:
0.876
PKSG-4b

UniProt

c.523C>T p.His175Tyr missense variant moderate contig700 2721150

IGV: Start, Jump

G/A
NGS:
0.112
C90:
0.325
PKSG-4b

UniProt

c.496A>G p.Lys166Glu missense variant moderate contig700 2721177

IGV: Start, Jump

T/C
NGS:
0.651
C90:
0.684
PKSG-4b

UniProt

c.489delT p.Phe163fs frameshift variant high contig700 2721183

IGV: Start, Jump

CA/C
NGS:
0.792
C90:
0.761
PKSG-4b

UniProt

c.485A>G p.Lys162Arg missense variant moderate contig700 2721188

IGV: Start, Jump

T/C
NGS:
0.643
C90:
0.301
aPT4

UniProt

c.757G>T p.Val253Leu missense variant moderate contig121 2831364

IGV: Start, Jump

G/T
NGS:
0.039
C90:
0.000
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
HDS-2

UniProt

c.82_93delGTAACCGGAACT p.Val28_Thr31del conservative inframe deletion moderate contig95 1989748

IGV: Start, Jump

CGTAACCGGAACT/C
NGS:
0.805
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.050 0.100 0.150 0.200
closely related moderately related distantly related
  1. 0.094 Santhica27 (RSP11047)
  2. 0.098 Santhica27 (RSP11046)
  3. 0.114 Santhica 27 (RSP10665)
  4. 0.121 Santhica 27 (SRR14708211)
  5. 0.129 Beniko (SRR14708275)
  6. 0.157 Ferimon 12 (SRR14708233)
  7. 0.162 Tygra (RSP10667)
  8. 0.162 Bialobrzeskie (SRR14708244)
  9. 0.163 USO 31 (RSP10983)
  10. 0.166 R1in136 (SRR14708227)
  11. 0.167 USO31 (RSP10233)
  12. 0.170 Juso14 (SRR14708259)
  13. 0.171 Fedora 17 (SRR14708222)
  14. 0.173 USO 31 (RSP10981)
  15. 0.173 VIR 223 - Bernburgskaya Odnodomnaya - bm (SRR14708217)
  16. 0.174 R1in136 (SRR14708226)
  17. 0.177 Futura 75 (RSP10664)
  18. 0.180 Monoica (RSP10241)
  19. 0.181 R1in136 (SRR14708237)
  20. 0.183 Fedora 17 (RSP10661)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
closely related moderately related distantly related
  1. 0.447 Cherry Blossom (RSP11312)
  2. 0.443 Cherry Blossom (RSP11318)
  3. 0.436 Cherry Blossom (RSP11300)
  4. 0.436 Escape Velocity (RSP11165)
  5. 0.431 Cherry Blossom (RSP11311)
  6. 0.430 Cherry Blossom (RSP11323)
  7. 0.429 QQD2 (RSP11450)
  8. 0.428 QLE1 (RSP11451)
  9. 0.428 Cherry Blossom (RSP11301)
  10. 0.424 Chematonic -Cannatonic x Chemdawg- (RSP11394)
  11. 0.424 JL x NSPM1 4 (RSP11482)
  12. 0.423 AVIDEKEL 2 0 (RSP11174)
  13. 0.423 Cherry Blossom (RSP11331)
  14. 0.421 Cherry Blossom (RSP11322)
  15. 0.419 Cherry Blossom (RSP11328)
  16. 0.418 Queen Dream CBG (RSP11293)
  17. 0.417 Wife (RSP11148)
  18. 0.417 Cherry Blossom (RSP11306)
  19. 0.416 Cherry Blossom (RSP11298)
  20. 0.416 Cherry Blossom (RSP11325)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4448790
Overlapping SNPs:
103
Concordance:
69

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495317
Overlapping SNPs:
13
Concordance:
10

Blockchain Registration Information

Transaction ID
651ff2763f334182474855157f8d7ef9964fd04f905d6647ec3b286469975a9e
Stamping Certificate
Download PDF (848.6 KB)
SHASUM Hash
cd9fcae6e777eb7ad69e7027303b19d2f10c4927d1c258ed015825a1f51a9602
QR code for RSP10056

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