Advanced Strain Search

JL Cross 23

RSP 11524

Grower: Kevin McKernan

General Information

Accession Date
June 17, 2020
Reported Plant Sex
not reported
DNA Extracted From
Unknown

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 II

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: 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: 0.0806
male female RSP11524

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
THCAS c.749C>A p.Ala250Asp missense variant moderate contig741 4417079

IGV: Start, Jump

G/T
NGS:
0.127
C90:
0.632

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.774G>A p.Met258Ile missense variant moderate contig700 1950864

IGV: Start, Jump

C/T
NGS:
0.366
C90:
0.947
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-2

UniProt

c.1319T>C p.Ile440Thr missense variant moderate contig380 285250

IGV: Start, Jump

A/G
NGS:
0.480
C90:
0.000
FAD2-2

UniProt

c.62C>T p.Pro21Leu missense variant moderate contig83 1803307

IGV: Start, Jump

G/A
NGS:
0.042
C90:
0.000
FAD2-2

UniProt

c.23G>A p.Ser8Asn missense variant moderate contig83 1803346

IGV: Start, Jump

C/T
NGS:
0.009
C90:
0.000
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.153A>C p.Lys51Asn missense variant moderate contig121 2828809

IGV: Start, Jump

A/C
NGS:
0.375
C90:
0.000
aPT4

UniProt

c.198A>C p.Lys66Asn missense variant moderate contig121 2828854

IGV: Start, Jump

A/C
NGS:
0.044
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 0.033 0.067 0.100 0.133
closely related moderately related distantly related
  1. 0.058 JL Tent 4 (RSP11491)
  2. 0.062 JL X NSPM1 7 (RSP11469)
  3. 0.072 JL x NSPM1 1 5 (RSP11479)
  4. 0.078 JL X NSPM1 21 (RSP11474)
  5. 0.081 JL Cross 9 (RSP11510)
  6. 0.084 JL X NSPM1 5 (RSP11467)
  7. 0.084 JL x NSPM1 3 (RSP11481)
  8. 0.088 JL X NSPM1 14 (RSP11473)
  9. 0.089 JL X NSPM1 30 (RSP11476)
  10. 0.090 JL Cross 19 (RSP11520)
  11. 0.090 JL Tent 2 (RSP11489)
  12. 0.091 JL Cross 21 (RSP11522)
  13. 0.095 JL Tent 3 (RSP11490)
  14. 0.097 JL Tent 1 yellow stake (RSP11488)
  15. 0.100 JL Cross 15 (RSP11516)
  16. 0.109 JL Cross 17 (RSP11518)
  17. 0.113 JL Cross 18 (RSP11519)
  18. 0.118 JL X NSPM1 22 (RSP11475)
  19. 0.118 JL X NSPM1 33 (RSP11477)
  20. 0.121 JL Cross 26 (RSP11527)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
closely related moderately related distantly related
  1. 0.458 Cbot-2019-005 (RSP11133)
  2. 0.453 80E (RSP11213)
  3. 0.448 BagSeed (RSP12627)
  4. 0.440 Northern Lights (RSP11501)
  5. 0.433 80E (RSP11212)
  6. 0.432 CS (RSP11208)
  7. 0.428 Ruderalis Indica (SRR14708267)
  8. 0.424 80E (RSP11211)
  9. 0.423 BagSeed (RSP12501)
  10. 0.418 RKM-2018-024 (RSP11116)
  11. 0.418 Arcata Trainwreck (RSP11176)
  12. 0.416 R1in136 (SRR14708226)
  13. 0.416 Carmaleonte (RSP11207)
  14. 0.413 R1in136 (SRR14708227)
  15. 0.412 IUP3 (SRR14708256)
  16. 0.411 R1in136 (SRR14708237)
  17. 0.410 IUP2 (SRR14708257)
  18. 0.409 Feral (RSP11205)
  19. 0.408 Carmagnola (RSP11202)
  20. 0.407 R3in134 (SRR14708218)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8349319
Overlapping SNPs:
71
Concordance:
50

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495226
Overlapping SNPs:
6
Concordance:
6

Blockchain Registration Information

SHASUM Hash
a6dadeba13cf271b3596208cf7041bee8b9f113b44d05504153dd294f137e2cd
QR code for RSP11524

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