Santhica27

RSP 11047

Grower: CSU

General Information

Sample Name
Santhica27-2
Accession Date
January 7, 2018
Reported Plant Sex
Female

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

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: 1.21%
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: 0.0501
male female RSP11047

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-2b

UniProt

c.31A>T p.Thr11Ser missense variant moderate contig700 1951851

IGV: Start, Jump

T/A
NGS:
0.844
C90:
0.880
PKSG-4b

UniProt

c.535_545delATTGGAGTGGG p.Ile179fs frameshift variant high contig700 2721127

IGV: Start, Jump

CCCCACTCCAAT/C
NGS:
0.105
C90:
0.000
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.489delT p.Phe163fs frameshift variant high contig700 2721183

IGV: Start, Jump

CA/C
NGS:
0.792
C90:
0.761
aPT4

UniProt

c.97T>C p.Tyr33His missense variant moderate contig121 2828753

IGV: Start, Jump

T/C
NGS:
0.439
C90:
0.000
aPT4

UniProt

c.235_236delGT p.Val79fs frameshift variant high contig121 2829030

IGV: Start, Jump

ATG/A
NGS:
0.417
C90:
0.000
aPT4

UniProt

c.238delT p.Ser80fs frameshift variant high contig121 2829034

IGV: Start, Jump

AT/A
NGS:
0.421
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 0.058 0.117 0.175 0.233
clone distance sibling distance more distant
  1. 0.003 Santhica27 (RSP11046)
  2. 0.094 Santhica27 (RSP10056)
  3. 0.117 Santhica 27 (SRR14708211)
  4. 0.129 Santhica 27 (RSP10665)
  5. 0.162 Bialobrzeskie (SRR14708244)
  6. 0.171 Beniko (SRR14708275)
  7. 0.176 Tygra (RSP10667)
  8. 0.177 Ferimon 12 (SRR14708233)
  9. 0.177 USO 31 (RSP10983)
  10. 0.184 USO 31 (RSP10981)
  11. 0.189 USO31 (RSP10233)
  12. 0.191 R1in136 (SRR14708226)
  13. 0.193 Futura 75 (RSP10664)
  14. 0.193 R1in136 (SRR14708227)
  15. 0.193 Fedora 17 (RSP10661)
  16. 0.194 Lovrin (RSP10658)
  17. 0.196 Fedora 17 (SRR14708222)
  18. 0.197 Ivory (RSP10668)
  19. 0.199 VIR 223 - Bernburgskaya Odnodomnaya - bm (SRR14708217)
  20. 0.201 Juso14 (SRR14708259)

Nearest genetic relatives (Base Tree)

0 0.083 0.167 0.250 0.333
clone distance sibling distance more distant
  1. 0.183 USO 31 (RSP10981)
  2. 0.198 Fedora 17 (RSP10661)
  3. 0.199 Lovrin (RSP10658)
  4. 0.199 Tygra (RSP10667)
  5. 0.201 Futura 75 (RSP10664)
  6. 0.211 Monoica (RSP10241)
  7. 0.217 Carmagnola (RSP11037)
  8. 0.218 Tisza (RSP10659)
  9. 0.225 Ivory (RSP10668)
  10. 0.235 Carmagnola (RSP10979)
  11. 0.236 Tisza (RSP11044)
  12. 0.245 Kyrgyz Gold (RSP11054)
  13. 0.258 Feral (RSP10890)
  14. 0.269 KYRG-11 (RSP11051)
  15. 0.276 Jiangji (RSP10653)
  16. 0.303 Liberty Haze (RSP11000)
  17. 0.314 Kimbo Slice (RSP10997)
  18. 0.318 Blueberry Cheesecake (RSP10684)
  19. 0.322 Hermaphrodite ResearchSample2 (RSP11050)
  20. 0.326 Blueberry Cheesecake (RSP10672)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.458 Cherry Blossom (RSP11312)
  2. 0.440 Cherry Blossom (RSP11300)
  3. 0.437 Cherry Blossom (RSP11298)
  4. 0.434 Cherry Blossom (RSP11318)
  5. 0.427 Escape Velocity (RSP11165)
  6. 0.421 Cherry Blossom (RSP11311)
  7. 0.420 Cherry Blossom (RSP11309)
  8. 0.419 Cherry Blossom (RSP11301)
  9. 0.418 Cherry Blossom (RSP11323)
  10. 0.418 Chem 91 (RSP11185)
  11. 0.417 Cherry Blossom (RSP11328)
  12. 0.412 Chematonic -Cannatonic x Chemdawg- (RSP11394)
  13. 0.410 QLE1 (RSP11451)
  14. 0.408 Ringo s Gift -Katie s Cut- (RSP11624)
  15. 0.407 Super Sour Diesel (RSP11191)
  16. 0.406 AVIDEKEL 2 0 (RSP11174)
  17. 0.405 JL Cross 10 (RSP11511)
  18. 0.405 JL 4th Gen 2 (RSP11194)
  19. 0.404 Up Royale (RSP11257)
  20. 0.404 Cherry Blossom (RSP11331)

Most genetically distant strains (Base Tree)

0 0.100 0.200 0.300 0.400
clone distance sibling distance more distant
  1. 0.392 JL yellow (RSP11075)
  2. 0.392 RKM-2018-002 (RSP11093)
  3. 0.391 RKM-2018-006 (RSP11097)
  4. 0.389 Cbot-2019-005 (RSP11133)
  5. 0.383 RKM-2018-023 (RSP11115)
  6. 0.383 RKM-2018-018 (RSP11110)
  7. 0.382 RKM-2018-027 (RSP11119)
  8. 0.381 Hermaphrodite Research Sample1 (RSP11049)
  9. 0.377 Blue Dream (RSP11033)
  10. 0.374 Cbot-2019-001 (RSP11129)
  11. 0.373 RKM-2018-028 (RSP11120)
  12. 0.367 RKM-2018-003 (RSP11094)
  13. 0.367 Cherry (RSP11143)
  14. 0.365 Black Beauty (RSP11035)
  15. 0.365 Gold Cracker (RSP11048)
  16. 0.364 RKM-2018-022 (RSP11114)
  17. 0.363 RKM-2018-032 (RSP11124)
  18. 0.362 Cherry (RSP11142)
  19. 0.360 RKM-2018-009 (RSP11100)
  20. 0.360 Cbot-2019-006 (RSP11134)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4448809
Overlapping SNPs:
93
Concordance:
64

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495160
Overlapping SNPs:
7
Concordance:
6

Blockchain Registration Information

Transaction ID
f771687ffd58a0d3ac3aa1449ce6cd2410556e9a38ac64d209d80313df1ad360
Stamping Certificate
Download PDF (864.6 KB)
SHASUM Hash
136a9b22ec3f551bb7ccd5af9039e470c8dc9d6e8cad0b267130ff8444e1e26e
QR code for RSP11047

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