Advanced Strain Search

Monoica

RSP 10241

Grower: CSU

General Information

Sample Name
Monoica-2
Accession Date
May 12, 2016
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 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: 1.18%
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: 0.0530
male female RSP10241

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)
CBDAS c.221C>G p.Thr74Ser missense variant moderate contig1772 2082447

IGV: Start, Jump

C/G
NGS:
0.136
C90:
0.057
CBDAS c.1420A>C p.Lys474Gln missense variant moderate contig1772 2083646

IGV: Start, Jump

A/C
NGS:
0.132
C90:
0.813

Variants (Select Genes of Interest)
PKSG-4a

UniProt

c.261_264dupGTAC p.Met89fs frameshift variant high contig700 1937671

IGV: Start, Jump

A/AGTAC
NGS:
0.004
C90:
0.000
PKSG-4a

UniProt

c.617A>G p.Tyr206Cys missense variant moderate contig700 1938028

IGV: Start, Jump

A/G
NGS:
0.075
C90:
0.000
PKSG-4a

UniProt

c.626_628delATA p.Asn209del disruptive inframe deletion moderate contig700 1938032

IGV: Start, Jump

CAAT/C
NGS:
0.075
C90:
0.000
PKSG-4a

UniProt

c.1191_1193delTTA p.Tyr398del disruptive inframe deletion moderate contig700 1938600

IGV: Start, Jump

AATT/A
NGS:
0.167
C90:
0.000
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-2a

UniProt

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

IGV: Start, Jump

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

UniProt

c.67A>T p.Ile23Phe missense variant moderate contig700 1951815

IGV: Start, Jump

T/A
NGS:
0.033
C90:
0.325
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.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
PKSG-4b

UniProt

c.431T>G p.Val144Gly missense variant moderate contig700 2721242

IGV: Start, Jump

A/C
NGS:
0.575
C90:
0.679
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
aPT4

UniProt

c.517A>T p.Ile173Leu missense variant & splice region variant moderate contig121 2830795

IGV: Start, Jump

A/T
NGS:
0.022
C90:
0.000
aPT4

UniProt

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

IGV: Start, Jump

G/T
NGS:
0.039
C90:
0.000
aPT4

UniProt

c.1168T>C p.Tyr390His missense variant moderate contig121 2833503

IGV: Start, Jump

T/C
NGS:
0.546
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
aPT1

UniProt

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

IGV: Start, Jump

G/T
NGS:
0.127
C90:
0.100
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
HDS-2

UniProt

c.679G>C p.Gly227Arg missense variant moderate contig95 1990632

IGV: Start, Jump

G/C
NGS:
0.037
C90:
0.000

Nearest genetic relatives (All Samples)

clone distance sibling distance more distant
  1. 0.177 Santhica27 (RSP10056)
  2. 0.187 Santhica27 (RSP11046)
  3. 0.189 Futura 75 (RSP10664)
  4. 0.189 Lovrin (RSP10658)
  5. 0.190 USO 31 (RSP10983)
  6. 0.190 Santhica 27 (RSP10665)
  7. 0.193 Santhica27 (RSP11047)
  8. 0.195 USO31 (RSP10233)
  9. 0.201 USO 31 (RSP10981)
  10. 0.208 Fedora 17 (RSP10661)
  11. 0.209 Tisza (RSP10659)
  12. 0.209 Fedora 17 (RSP11203)
  13. 0.210 Diana (RSP10235)
  14. 0.217 KYRG-151 (RSP11052)
  15. 0.219 Ivory (RSP10668)
  16. 0.220 Tygra (RSP10667)
  17. 0.226 Tisza (RSP11044)
  18. 0.226 Carmagnola (RSP10978)
  19. 0.227 Carmagnola USO 31 (RSP11204)
  20. 0.230 Tisza (RSP11045)

Nearest genetic relatives (Base Tree)

clone distance sibling distance more distant
  1. 0.187 Santhica27 (RSP11047)
  2. 0.189 Lovrin (RSP10658)
  3. 0.192 Futura 75 (RSP10664)
  4. 0.196 USO 31 (RSP10981)
  5. 0.199 Fedora 17 (RSP10661)
  6. 0.211 Tisza (RSP10659)
  7. 0.216 Tygra (RSP10667)
  8. 0.218 Ivory (RSP10668)
  9. 0.225 Tisza (RSP11044)
  10. 0.236 Carmagnola (RSP10979)
  11. 0.246 Carmagnola (RSP11037)
  12. 0.246 Kyrgyz Gold (RSP11054)
  13. 0.249 KYRG-11 (RSP11051)
  14. 0.256 Feral (RSP10890)
  15. 0.258 Jiangji (RSP10653)
  16. 0.302 Hermaphrodite ResearchSample2 (RSP11050)
  17. 0.303 Liberty Haze (RSP11000)
  18. 0.303 Recon (RSP10755)
  19. 0.307 RKM-2018-029 (RSP11121)
  20. 0.319 Kimbo Slice (RSP10997)

Most genetically distant strains (All Samples)

clone distance sibling distance more distant
  1. 0.459 Cherry Blossom (RSP11312)
  2. 0.457 Cherry Blossom (RSP11318)
  3. 0.454 Cherry Blossom (RSP11323)
  4. 0.450 Cherry Blossom (RSP11300)
  5. 0.448 Cherry Blossom (RSP11311)
  6. 0.434 Cherry Blossom (RSP11301)
  7. 0.434 Cherry Blossom (RSP11331)
  8. 0.434 Unknown- Cherry Wine - 001 (RSP11268)
  9. 0.429 Wife (RSP11148)
  10. 0.427 Cherry Blossom (RSP11298)
  11. 0.427 Cherry Blossom (RSP11316)
  12. 0.422 Avidekel (RSP10938)
  13. 0.422 Cherry Blossom (RSP11274)
  14. 0.422 Queen Dream CBG (RSP11295)
  15. 0.421 Cherry Blossom (RSP11319)
  16. 0.417 Cherry Blossom (RSP11334)
  17. 0.416 Cherry Blossom (RSP11328)
  18. 0.415 Cherry Blossom (RSP11325)
  19. 0.410 Cherry Blossom (RSP11332)
  20. 0.410 Cherry Blossom (RSP11299)

Most genetically distant strains (Base Tree)

clone distance sibling distance more distant
  1. 0.410 Cbot-2019-005 (RSP11133)
  2. 0.382 RKM-2018-018 (RSP11110)
  3. 0.380 Skunk 18 (RSP11038)
  4. 0.376 RKM-2018-028 (RSP11120)
  5. 0.374 RKM-2018-002 (RSP11093)
  6. 0.373 RKM-2018-006 (RSP11097)
  7. 0.370 UP Sunrise (RSP10989)
  8. 0.367 JL yellow (RSP11075)
  9. 0.365 Hermaphrodite Research Sample1 (RSP11049)
  10. 0.364 RKM-2018-032 (RSP11124)
  11. 0.363 RKM-2018-022 (RSP11114)
  12. 0.361 Cbot-2019-001 (RSP11129)
  13. 0.359 Cherry (RSP11143)
  14. 0.356 Golden Goat 2 (RSP10991)
  15. 0.354 Cherry (RSP11142)
  16. 0.354 Sour Raspberry (RSP10551)
  17. 0.354 RKM-2018-023 (RSP11115)
  18. 0.352 Cbot-2019-004 (RSP11132)
  19. 0.351 RKM-2018-019 (RSP11111)
  20. 0.351 RKM-2018-005 (RSP11096)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4450089
Overlapping SNPs:
113
Concordance:
81

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495233
Overlapping SNPs:
17
Concordance:
15

Blockchain Registration Information

Transaction ID
413a5ce57542e7fbb20d4a69ef0a751998e2477d955b29e258747c06ec9c8e50
Stamping Certificate
Download PDF (851.2 KB)
SHASUM Hash
ef0d19fb06464992023403e3ee5a71eeb9703652d78382fae491ca5f5f5b74a2
QR code for RSP10241

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