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. 0.006 Santhica27 (RSP11046)
  2. 0.099 Santhica27 (RSP10056)
  3. 0.132 Santhica 27 (RSP10665)
  4. 0.181 USO 31 (RSP10983)
  5. 0.183 Fedora 17 (RSP10661)
  6. 0.184 Tygra (RSP10667)
  7. 0.185 Lovrin (RSP10658)
  8. 0.186 USO 31 (RSP10981)
  9. 0.193 USO31 (RSP10233)
  10. 0.193 Monoica (RSP10241)
  11. 0.206 Futura 75 (RSP10664)
  12. 0.207 Fedora 17 (RSP11203)
  13. 0.215 Diana (RSP10235)
  14. 0.218 Carmagnola (RSP10982)
  15. 0.218 Tisza (RSP10659)
  16. 0.218 Carmagnola (RSP11039)
  17. 0.219 Carmagnola USO 31 (RSP11204)
  18. 0.220 Carmagnola (RSP10978)
  19. 0.220 Ivory (RSP10668)
  20. 0.222 Carmagnola (RSP10977)

Nearest genetic relatives (Base Tree)

0 0.083 0.167 0.250 0.333
clone distance sibling distance more distant
  1. 0.179 USO 31 (RSP10981)
  2. 0.179 Fedora 17 (RSP10661)
  3. 0.182 Lovrin (RSP10658)
  4. 0.187 Monoica (RSP10241)
  5. 0.192 Tygra (RSP10667)
  6. 0.199 Futura 75 (RSP10664)
  7. 0.213 Tisza (RSP10659)
  8. 0.213 Ivory (RSP10668)
  9. 0.223 Carmagnola (RSP11037)
  10. 0.233 Carmagnola (RSP10979)
  11. 0.237 Tisza (RSP11044)
  12. 0.251 Kyrgyz Gold (RSP11054)
  13. 0.258 Jiangji (RSP10653)
  14. 0.258 KYRG-11 (RSP11051)
  15. 0.262 Feral (RSP10890)
  16. 0.308 Kimbo Slice (RSP10997)
  17. 0.310 Recon (RSP10755)
  18. 0.312 Liberty Haze (RSP11000)
  19. 0.317 RKM-2018-029 (RSP11121)
  20. 0.319 Durban Poison (RSP11014)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.466 Cherry Blossom (RSP11318)
  2. 0.463 Cherry Blossom (RSP11312)
  3. 0.448 Cherry Blossom (RSP11323)
  4. 0.439 Cherry Blossom (RSP11300)
  5. 0.434 Cherry Blossom (RSP11298)
  6. 0.429 Unknown- Cherry Wine - 001 (RSP11268)
  7. 0.428 Cherry Blossom (RSP11328)
  8. 0.428 Cherry Blossom (RSP11311)
  9. 0.422 Escape Velocity (RSP11165)
  10. 0.421 Cherry Blossom (RSP11331)
  11. 0.418 Wife (RSP11148)
  12. 0.416 Queen Dream CBG (RSP11295)
  13. 0.414 Cherry Blossom (RSP11301)
  14. 0.413 Cherry Blossom (RSP11319)
  15. 0.413 Cherry Blossom (RSP11306)
  16. 0.413 Cherry Blossom (RSP11310)
  17. 0.412 Cherry Blossom (RSP11325)
  18. 0.411 Cherry Blossom (RSP11316)
  19. 0.408 Cherry Blossom (RSP11329)
  20. 0.408 Cherry Blossom (RSP11322)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.407 Cbot-2019-005 (RSP11133)
  2. 0.383 JL yellow (RSP11075)
  3. 0.380 RKM-2018-002 (RSP11093)
  4. 0.372 RKM-2018-006 (RSP11097)
  5. 0.370 RKM-2018-023 (RSP11115)
  6. 0.370 Cbot-2019-001 (RSP11129)
  7. 0.369 RKM-2018-028 (RSP11120)
  8. 0.368 Blue Dream (RSP11033)
  9. 0.366 Kush Hemp E1 (RSP11128)
  10. 0.365 Hermaphrodite Research Sample1 (RSP11049)
  11. 0.364 RKM-2018-018 (RSP11110)
  12. 0.364 RKM-2018-022 (RSP11114)
  13. 0.364 Cherry (RSP11143)
  14. 0.357 RKM-2018-003 (RSP11094)
  15. 0.357 RKM-2018-032 (RSP11124)
  16. 0.356 Blueberry Cheesecake (RSP10672)
  17. 0.356 Cbot-2019-004 (RSP11132)
  18. 0.356 Skunk 18 (RSP11038)
  19. 0.355 Cherry (RSP11142)
  20. 0.354 Golden Goat 2 (RSP10991)

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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