Advanced Strain Search

PCL1

SRR 14708246

Grower: Lanzhou University, Guangpeng Ren

General Information

Accession Date
May 31, 2021
Reported Plant Sex
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: 1.54%
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: 0.0654
male female SRR14708246

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)
aPT1

UniProt

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

IGV: Start, Jump

C/T
NGS:
0.561
C90:
0.598
AAE1-2

UniProt

c.331A>G p.Asn111Asp missense variant moderate contig81 209293

IGV: Start, Jump

A/G
NGS:
0.123
C90:
0.000
AAE1-2

UniProt

c.1006A>G p.Lys336Glu missense variant moderate contig81 209968

IGV: Start, Jump

A/G
NGS:
0.116
C90:
0.000
HDS-1

UniProt

c.136G>A p.Val46Ile missense variant moderate contig1891 889256

IGV: Start, Jump

C/T
NGS:
0.088
C90:
0.593
aPT4

UniProt

c.202T>A p.Leu68Ile missense variant moderate contig121 2828858

IGV: Start, Jump

T/A
NGS:
0.068
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

Nearest genetic relatives (All Samples)

clone distance sibling distance more distant
  1. 0.071 AOAC MI 545 (RSP11756)
  2. 0.073 AOAC MI 532 (RSP11752)
  3. 0.073 AOAC MI 588 (RSP11760)
  4. 0.074 Lift (RSP11378)
  5. 0.074 AOAC MI 508 (RSP11750)
  6. 0.074 AOAC MI 542 (RSP11755)
  7. 0.080 AOAC MI 548 (RSP11757)
  8. 0.080 AOAC MI 567 (RSP11758)
  9. 0.082 AOAC MI 504 (RSP11749)
  10. 0.083 AOAC MI 501 (RSP11748)
  11. 0.083 AOAC MI 597 (RSP11761)
  12. 0.083 B52 (SRR14708255)
  13. 0.085 AOAC MI 535 (RSP11754)
  14. 0.087 AOAC MI 533 (RSP11753)
  15. 0.088 Serious Happiness (RSP10763)
  16. 0.088 AOAC MI 599 (RSP11762)
  17. 0.092 AOAC MI 569 (RSP11759)
  18. 0.093 Electra (RSP11366)
  19. 0.096 Doug s Varin (RSP11243)
  20. 0.104 Suver Haze (RSP11364)

Nearest genetic relatives (Base Tree)

clone distance sibling distance more distant
  1. 0.108 CST (RSP11002)
  2. 0.129 KYRG-11 (RSP11051)
  3. 0.145 Hermaphrodite ResearchSample2 (RSP11050)
  4. 0.150 Blueberry Cheesecake (RSP10684)
  5. 0.150 Liberty Haze (RSP11000)
  6. 0.174 RKM-2018-020 (RSP11112)
  7. 0.177 Golden Goat 2 (RSP10991)
  8. 0.182 RKM-2018-003 (RSP11094)
  9. 0.190 UP Sunrise (RSP10989)
  10. 0.207 Tygra (RSP10667)
  11. 0.208 Recon (RSP10755)
  12. 0.211 The Gift (RSP10988)
  13. 0.211 RKM-2018-022 (RSP11114)
  14. 0.211 Jiangji (RSP10653)
  15. 0.213 Gold Cracker (RSP11048)
  16. 0.222 Durban Poison (RSP11014)
  17. 0.222 Italian Kiss (RSP11034)
  18. 0.226 QUEEN JESUS (RSP10105)
  19. 0.226 Blueberry Cheesecake (RSP10672)
  20. 0.227 RKM-2018-029 (RSP11121)

Most genetically distant strains (All Samples)

clone distance sibling distance more distant
  1. 0.455 Feral (RSP11205)
  2. 0.440 80E (RSP11213)
  3. 0.423 JL yellow (RSP11075)
  4. 0.400 JL 3rd Gen Mother (RSP11214)
  5. 0.400 Carmaleonte (RSP11207)
  6. 0.396 80E (RSP11211)
  7. 0.394 Danny Noonan (RSP11070)
  8. 0.388 Kush Hemp E1 (RSP11128)
  9. 0.384 JL 3rd Gen Mother (RSP11197)
  10. 0.375 JL 4th Gen 2 (RSP11194)
  11. 0.369 Ivory (RSP10668)
  12. 0.367 Santhica27 (RSP10056)
  13. 0.365 Fedora 17 (RSP10661)
  14. 0.362 USO 31 (RSP10983)
  15. 0.361 USO31 (RSP10233)
  16. 0.358 Feral (RSP11206)
  17. 0.357 Tanao Sri-white 80 (RSP11621)
  18. 0.356 Grape Stomper (RSP11180)
  19. 0.350 JL 4th Gen 5 (RSP11199)
  20. 0.349 GG4 (RSP11978)

Most genetically distant strains (Base Tree)

clone distance sibling distance more distant
  1. 0.397 JL yellow (RSP11075)
  2. 0.373 Kush Hemp E1 (RSP11128)
  3. 0.347 Cbot-2019-005 (RSP11133)
  4. 0.346 Fedora 17 (RSP10661)
  5. 0.342 Ivory (RSP10668)
  6. 0.318 Cbot-2019-006 (RSP11134)
  7. 0.314 Blueberry Cheesecake (RSP10680)
  8. 0.313 RKM-2018-002 (RSP11093)
  9. 0.308 Carmagnola (RSP11037)
  10. 0.305 Skywalker OG (RSP10837)
  11. 0.305 RKM-2018-006 (RSP11097)
  12. 0.304 Lovrin (RSP10658)
  13. 0.304 Cbot-2019-004 (RSP11132)
  14. 0.302 Futura 75 (RSP10664)
  15. 0.300 RKM-2018-026 (RSP11118)
  16. 0.297 RKM-2018-033 (RSP11125)
  17. 0.295 RKM-2018-028 (RSP11120)
  18. 0.295 Tisza (RSP11044)
  19. 0.294 Carmagnola (RSP10979)
  20. 0.294 Feral (RSP10890)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4448677
Overlapping SNPs:
8
Concordance:
7
QR code for SRR14708246

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