Advanced Strain Search

USO 31

RSP 10983

Grower: John McKay-Colorado State University

General Information

Sample Name
USO31_1_1_CSU
Accession Date
July 16, 2017
Reported Plant Sex
Hermaphrodite

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: 1.09%
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: 0.0529
male female RSP10983

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)

Gene HGVS.c HGVS.p Annotation Annotation Impact Contig Contig Pos Ref/Alt Var Freq
CBDAS c.221C>G p.Thr74Ser missense variant moderate contig1772 2082447

IGV: Start, Jump

C/G
NGS:
0.136
C90:
0.057

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.948T>G p.Asp316Glu missense variant moderate contig700 1950690

IGV: Start, Jump

A/C
NGS:
0.456
C90:
0.000
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
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.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)

0 0.050 0.100 0.150 0.200
clone distance sibling distance more distant
  1. 0.006 USO 31 (RSP10981)
  2. 0.143 Lovrin (RSP10658)
  3. 0.147 Carmagnola USO 31 (RSP11204)
  4. 0.159 R1in136 (SRR14708226)
  5. 0.163 Santhica27 (RSP10056)
  6. 0.165 USO31 (RSP10233)
  7. 0.177 Santhica27 (RSP11047)
  8. 0.179 R1in136 (SRR14708227)
  9. 0.180 Santhica27 (RSP11046)
  10. 0.181 Ivory (RSP10668)
  11. 0.183 Santhica 27 (RSP10665)
  12. 0.188 Fedora 17 (RSP10661)
  13. 0.188 Diana (RSP10235)
  14. 0.189 Juso14 (SRR14708259)
  15. 0.192 Beniko (SRR14708275)
  16. 0.192 R1in136 (SRR14708225)
  17. 0.193 Santhica 27 (SRR14708211)
  18. 0.194 VIR 507 - Krasnodarsky 10 FB (SRR14708229)
  19. 0.194 Monoica (RSP10241)
  20. 0.195 Bialobrzeskie (SRR14708244)

Nearest genetic relatives (Base Tree)

0 0.083 0.167 0.250 0.333
clone distance sibling distance more distant
  1. 0.006 USO 31 (RSP10981)
  2. 0.146 Lovrin (RSP10658)
  3. 0.184 Santhica27 (RSP11047)
  4. 0.192 Ivory (RSP10668)
  5. 0.193 Fedora 17 (RSP10661)
  6. 0.196 Futura 75 (RSP10664)
  7. 0.199 Monoica (RSP10241)
  8. 0.208 Tygra (RSP10667)
  9. 0.227 Tisza (RSP10659)
  10. 0.237 Tisza (RSP11044)
  11. 0.239 KYRG-11 (RSP11051)
  12. 0.239 Carmagnola (RSP11037)
  13. 0.255 Carmagnola (RSP10979)
  14. 0.256 Feral (RSP10890)
  15. 0.258 Kyrgyz Gold (RSP11054)
  16. 0.274 Jiangji (RSP10653)
  17. 0.313 Liberty Haze (RSP11000)
  18. 0.325 Recon (RSP10755)
  19. 0.330 RKM-2018-029 (RSP11121)
  20. 0.333 Kimbo Slice (RSP10997)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.459 Cherry Blossom (RSP11318)
  2. 0.456 Cherry Blossom (RSP11312)
  3. 0.441 Chem 91 (RSP11185)
  4. 0.440 Cherry Blossom (RSP11300)
  5. 0.440 Cherry Blossom (RSP11328)
  6. 0.438 QLE1 (RSP11451)
  7. 0.436 Cherry Blossom (RSP11298)
  8. 0.436 Cherry Blossom (RSP11331)
  9. 0.436 Cherry Blossom (RSP11323)
  10. 0.433 Cherry Blossom (RSP11311)
  11. 0.428 Cherry Blossom (RSP11299)
  12. 0.426 Cherry Blossom (RSP11332)
  13. 0.426 JL Cross 11 (RSP11512)
  14. 0.425 QQD2 (RSP11450)
  15. 0.425 New York City Deisel (RSP11225)
  16. 0.424 Cherry Blossom (RSP11310)
  17. 0.423 Cherry Blossom (RSP11319)
  18. 0.422 Motor Breath #15 (RSP12093)
  19. 0.422 Cherry Blossom (RSP11301)
  20. 0.422 Chematonic -Cannatonic x Chemdawg- (RSP11394)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.418 RKM-2018-002 (RSP11093)
  2. 0.392 RKM-2018-032 (RSP11124)
  3. 0.392 JL yellow (RSP11075)
  4. 0.391 RKM-2018-028 (RSP11120)
  5. 0.387 Cbot-2019-005 (RSP11133)
  6. 0.383 Skunk#18 (RSP11038)
  7. 0.382 RKM-2018-023 (RSP11115)
  8. 0.382 Cbot-2019-001 (RSP11129)
  9. 0.381 RKM-2018-004 (RSP11096)
  10. 0.380 RKM-2018-006 (RSP11097)
  11. 0.379 Cherry (RSP11143)
  12. 0.373 RKM-2018-027 (RSP11119)
  13. 0.372 Cherry (RSP11142)
  14. 0.370 RKM-2018-022 (RSP11114)
  15. 0.369 Gold Cracker (RSP11048)
  16. 0.368 RKM-2018-009 (RSP11100)
  17. 0.368 RKM-2018-018 (RSP11110)
  18. 0.366 Blue Dream (RSP11033)
  19. 0.366 RKM-2018-031 (RSP11123)
  20. 0.366 RKM-2018-020 (RSP11112)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4450090
Overlapping SNPs:
117
Concordance:
87

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495156
Overlapping SNPs:
7
Concordance:
6

Blockchain Registration Information

Transaction ID
aa2241bed437c94cbf06b5a718c45487bc25c2124a3235800e3a9ffa9b8db3c5
Stamping Certificate
Download PDF (856.9 KB)
SHASUM Hash
7772136e8bbb05033c7e1f4185e4766019378ad19913f564cb463d5655733e9a
QR code for RSP10983

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