JL_X_NSPM1_14

RSP 11473

Grower: Kevin McKernan

General Information

Accession Date
May 7, 2020
Reported Plant Sex
Male

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: Common
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 I

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: 0.97%
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: 0.0829
male female RSP11473

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.1152T>A p.Asn384Lys missense variant moderate contig700 1950486

IGV: Start, Jump

A/T
NGS:
0.715
C90:
0.895
PKSG-2b

UniProt

c.1132C>G p.Leu378Val missense variant moderate contig700 1950506

IGV: Start, Jump

G/C
NGS:
0.717
C90:
0.000
PKSG-2b

UniProt

c.1117A>G p.Ile373Val missense variant moderate contig700 1950521

IGV: Start, Jump

T/C
NGS:
0.807
C90:
0.981
PKSG-2b

UniProt

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

IGV: Start, Jump

T/A
NGS:
0.844
C90:
0.880
DXR-1

UniProt

c.483+2T>A splice donor variant & intron variant high contig380 234335

IGV: Start, Jump

A/T
NGS:
0.002
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
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
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.127T>G p.Ser43Ala missense variant moderate contig95 1989794

IGV: Start, Jump

T/G
NGS:
0.721
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.050 0.100 0.150 0.200
clone distance sibling distance more distant
  1. 0.043 JL X NSPM1 7 (RSP11469)
  2. 0.083 Domnesia (RSP11184)
  3. 0.103 Electra (RSP11366)
  4. 0.104 JL X NSPM1 11 (RSP11471)
  5. 0.112 JL X NSPM1 6 (RSP11468)
  6. 0.117 JL X NSPM1 5 (RSP11467)
  7. 0.121 Joy (RSP11380)
  8. 0.122 Serious Happiness (RSP10763)
  9. 0.125 Doug s Varin (RSP11243)
  10. 0.131 Lift (RSP11378)
  11. 0.137 Whitey (RSP11363)
  12. 0.143 Blue Dream (RSP11004)
  13. 0.154 NSPM1 (RSP11362)
  14. 0.155 CBG- 40 (RSP11444)
  15. 0.167 Super Blue Dream (RSP11011)
  16. 0.169 Blueberry Cheesecake (RSP10684)
  17. 0.170 Suver Haze (RSP11364)
  18. 0.172 Rest (RSP11377)
  19. 0.174 Lifter (RSP11365)
  20. 0.176 SHERBERT (RSP11355)

Nearest genetic relatives (Base Tree)

0 0.075 0.150 0.225 0.300
clone distance sibling distance more distant
  1. 0.184 Liberty Haze (RSP11000)
  2. 0.185 Blueberry Cheesecake (RSP10684)
  3. 0.221 UP Sunrise (RSP10989)
  4. 0.227 Golden Goat 2 (RSP10991)
  5. 0.232 The Gift (RSP10988)
  6. 0.235 Durban Poison (RSP11014)
  7. 0.250 Gold Cracker (RSP11048)
  8. 0.253 RKM-2018-029 (RSP11121)
  9. 0.254 Hermaphrodite ResearchSample2 (RSP11050)
  10. 0.255 RKM-2018-033 (RSP11125)
  11. 0.257 RKM-2018-020 (RSP11112)
  12. 0.259 Blue Dream (RSP11033)
  13. 0.261 Sour Raspberry (RSP10551)
  14. 0.263 Kimbo Slice (RSP10997)
  15. 0.263 Recon (RSP10755)
  16. 0.267 Hermaphrodite Research Sample1 (RSP11049)
  17. 0.267 CST (RSP11002)
  18. 0.267 RKM-2018-009 (RSP11100)
  19. 0.270 RKM-2018-034 (RSP11126)
  20. 0.276 Blueberry Cheesecake (RSP10680)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.440 80E (RSP11213)
  2. 0.403 CS (RSP11208)
  3. 0.402 Arcata Trainwreck (RSP11176)
  4. 0.400 80E (RSP11211)
  5. 0.398 Feral (RSP11205)
  6. 0.393 Cherry Blossom (RSP11323)
  7. 0.391 80E (RSP11212)
  8. 0.387 Cbot-2019-005 (RSP11133)
  9. 0.385 Danny Noonan (RSP11070)
  10. 0.385 Feral (RSP10891)
  11. 0.383 Carmagnola (RSP11202)
  12. 0.376 Cherry Blossom (RSP11318)
  13. 0.375 Feral (RSP11206)
  14. 0.373 RKM-2018-024 (RSP11116)
  15. 0.371 Kush Hemp E1 (RSP11128)
  16. 0.371 Carmagnola (RSP11037)
  17. 0.369 Carmaleonte (RSP11207)
  18. 0.368 Feral (RSP10892)
  19. 0.367 Diana (RSP10235)
  20. 0.365 USO31 (RSP10233)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.402 Cbot-2019-005 (RSP11133)
  2. 0.383 Kush Hemp E1 (RSP11128)
  3. 0.376 Carmagnola (RSP11037)
  4. 0.366 Feral (RSP10890)
  5. 0.363 Monoica (RSP10241)
  6. 0.358 RKM-2018-002 (RSP11093)
  7. 0.345 Carmagnola (RSP10979)
  8. 0.345 Fedora 17 (RSP10661)
  9. 0.344 Santhica27 (RSP11047)
  10. 0.343 Tisza (RSP11044)
  11. 0.342 Black Beauty (RSP11035)
  12. 0.342 Ivory (RSP10668)
  13. 0.340 RKM-2018-026 (RSP11118)
  14. 0.340 JL yellow (RSP11075)
  15. 0.338 Futura 75 (RSP10664)
  16. 0.336 Skunk 18 (RSP11038)
  17. 0.336 Kyrgyz Gold (RSP11054)
  18. 0.336 USO 31 (RSP10981)
  19. 0.335 RKM-2018-018 (RSP11110)
  20. 0.334 RKM-2018-006 (RSP11097)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4448783
Overlapping SNPs:
52
Concordance:
36

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495226
Overlapping SNPs:
5
Concordance:
5

Blockchain Registration Information

Transaction ID
678b0ae0cc9bb8b3148603431a204ff91ea5ad3d1e57f2ba19078a0fe0167cd5
Stamping Certificate
Download PDF (39.9 KB)
SHASUM Hash
1a2c66fe478a61c5503bca6c3d1b93811bd68d3cd0230cece9d2ea2c51624103
QR code for RSP11473

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