Advanced Strain Search

JL Cross 18

RSP 11519

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: 0.88%
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: 0.0375
male female RSP11519

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.431C>G p.Ala144Gly missense variant moderate contig380 287760

IGV: Start, Jump

G/C
NGS:
0.182
C90:
0.550
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.775delT p.Tyr259fs frameshift variant high contig121 2831380

IGV: Start, Jump

AT/A
NGS:
0.224
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.406A>G p.Ile136Val missense variant moderate contig121 2839605

IGV: Start, Jump

A/G
NGS:
0.579
C90:
0.761
aPT1

UniProt

c.629C>T p.Thr210Ile missense variant moderate contig121 2840237

IGV: Start, Jump

C/T
NGS:
0.561
C90:
0.598
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. 0.044 JL X NSPM1 14 (RSP11473)
  2. 0.056 JL Tent 2 (RSP11489)
  3. 0.057 JL Tent 3 (RSP11490)
  4. 0.066 JL Cross 28 (RSP11529)
  5. 0.073 JL X NSPM1 21 (RSP11474)
  6. 0.075 JL Cross 17 (RSP11518)
  7. 0.077 JL X NSPM1 7 (RSP11469)
  8. 0.079 JL Cross 21 (RSP11522)
  9. 0.101 JL x NSPM1 1 (RSP11478)
  10. 0.101 JL Cross 19 (RSP11520)
  11. 0.102 JL Cross 9 (RSP11510)
  12. 0.108 JL X NSPM1 30 (RSP11476)
  13. 0.110 JL x NSPM1 3 (RSP11481)
  14. 0.110 JL X NSPM1 33 (RSP11477)
  15. 0.111 JL Cross 26 (RSP11527)
  16. 0.112 JL x NSPM1 1 5 (RSP11479)
  17. 0.113 JL Cross 23 (RSP11524)
  18. 0.117 JL X NSPM1 22 (RSP11475)
  19. 0.117 JL Cross 2 (RSP11503)
  20. 0.123 JL X NSPM1 6 (RSP11468)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
closely related moderately related distantly related
  1. 0.466 80E (RSP11213)
  2. 0.433 80E (RSP11211)
  3. 0.433 80E (RSP11212)
  4. 0.429 CS (RSP11208)
  5. 0.425 Northern Lights (RSP11501)
  6. 0.415 Cbot-2019-005 (RSP11133)
  7. 0.409 Arcata Trainwreck (RSP11176)
  8. 0.409 White Label 1 (RSP11336)
  9. 0.408 IUP3 (SRR14708256)
  10. 0.408 Carmagnola (RSP11202)
  11. 0.408 R1in136 (SRR14708226)
  12. 0.406 RKM-2018-024 (RSP11116)
  13. 0.406 Tanao Sri -46- (RSP11486)
  14. 0.404 Carmagnola (RSP10980)
  15. 0.403 IUP2 (SRR14708257)
  16. 0.402 R1in136 (SRR14708237)
  17. 0.402 Feral (RSP11206)
  18. 0.401 Feral (RSP11205)
  19. 0.401 Carmagnola (RSP10977)
  20. 0.400 Carmagnola (RSP11037)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4451188
Overlapping SNPs:
71
Concordance:
48

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495226
Overlapping SNPs:
6
Concordance:
6

Blockchain Registration Information

SHASUM Hash
4e2f80897f4a2cd930dd26f9528813617276918f3e6f782808854776f979ca77
QR code for RSP11519

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