PCL1

SRR 14708246

Grower: Lanzhou University, Guangpeng Ren

General Information

Accession Date
May 31, 2021
Reported Plant Sex
not reported

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: Rare
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

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)

0 0.075 0.150 0.225 0.300
clone distance sibling distance more distant
  1. 0.166 PCL2 (SRR14708245)
  2. 0.252 KYRG-151 (RSP11052)
  3. 0.254 PID2 (SRR14708247)
  4. 0.255 Jiangji (RSP10653)
  5. 0.258 IBR2 (SRR14708250)
  6. 0.259 Tisza (RSP10659)
  7. 0.261 PID1 (SRR14708248)
  8. 0.261 Tak-HN (RSP11618)
  9. 0.264 IBR3 (SRR14708249)
  10. 0.264 IBE (SRR14708228)
  11. 0.265 R3 (RSP11616)
  12. 0.266 KYRG-11 (RSP11051)
  13. 0.266 Santhica27 (RSP10056)
  14. 0.267 Tisza (RSP11044)
  15. 0.267 IUL3 (SRR14708252)
  16. 0.267 R2 (RSP11615)
  17. 0.269 IBR1 (SRR14708251)
  18. 0.269 IMA (SRR14708203)
  19. 0.269 YNN (SRR14708199)
  20. 0.269 VIR 369 (SRR14708231)

Nearest genetic relatives (Base Tree)

0 0.083 0.167 0.250 0.333
clone distance sibling distance more distant
  1. 0.251 Jiangji (RSP10653)
  2. 0.255 Tisza (RSP11044)
  3. 0.270 KYRG-11 (RSP11051)
  4. 0.278 Tisza (RSP10659)
  5. 0.281 Kyrgyz Gold (RSP11054)
  6. 0.285 Tygra (RSP10667)
  7. 0.292 Lovrin (RSP10658)
  8. 0.293 Carmagnola (RSP10979)
  9. 0.297 Futura 75 (RSP10664)
  10. 0.298 Carmagnola (RSP11037)
  11. 0.301 Fedora 17 (RSP10661)
  12. 0.301 Feral (RSP10890)
  13. 0.302 Monoica (RSP10241)
  14. 0.306 Ivory (RSP10668)
  15. 0.310 Recon (RSP10755)
  16. 0.310 Santhica27 (RSP11047)
  17. 0.320 USO 31 (RSP10981)
  18. 0.321 Liberty Haze (RSP11000)
  19. 0.322 RKM-2018-029 (RSP11121)
  20. 0.323 CST (RSP11002)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.458 Cherry Blossom (RSP11318)
  2. 0.442 Cherry Blossom (RSP11323)
  3. 0.440 Cherry Blossom (RSP11300)
  4. 0.436 Cherry Blossom (RSP11328)
  5. 0.435 Cherry Blossom (RSP11301)
  6. 0.434 Unknown--Cherry Wine---001- (RSP11268)
  7. 0.429 Cherry Blossom (RSP11331)
  8. 0.427 Cherry Blossom (RSP11311)
  9. 0.427 Chem 91 (RSP11185)
  10. 0.427 Cherry Blossom (RSP11312)
  11. 0.424 GG4 (RSP11978)
  12. 0.422 Cherry Blossom (RSP11333)
  13. 0.420 Cherry Blossom (RSP11306)
  14. 0.420 Cherry Blossom (RSP11322)
  15. 0.420 QLE1 (RSP11451)
  16. 0.418 New York City Deisel (RSP11225)
  17. 0.418 RKM-2018-002 (RSP11093)
  18. 0.418 CHEM4 (RSP12090)
  19. 0.417 Cherry Blossom (RSP11302)
  20. 0.415 Cherry Blossom (RSP11329)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.419 RKM-2018-002 (RSP11093)
  2. 0.398 RKM-2018-032 (RSP11124)
  3. 0.393 RKM-2018-022 (RSP11114)
  4. 0.392 RKM-2018-028 (RSP11120)
  5. 0.389 Skywalker OG (RSP10837)
  6. 0.387 JL yellow (RSP11075)
  7. 0.384 Kush Hemp E1 (RSP11128)
  8. 0.382 Hermaphrodite Research Sample1 (RSP11049)
  9. 0.379 Cherry (RSP11142)
  10. 0.377 RKM-2018-009 (RSP11100)
  11. 0.376 RKM-2018-023 (RSP11115)
  12. 0.376 Cbot-2019-005 (RSP11133)
  13. 0.376 Italian Kiss (RSP11034)
  14. 0.375 RKM-2018-018 (RSP11110)
  15. 0.373 RKM-2018-006 (RSP11097)
  16. 0.371 RKM-2018-004 (RSP11096)
  17. 0.371 Gold Cracker (RSP11048)
  18. 0.370 Skunk#18 (RSP11038)
  19. 0.369 RKM-2018-026 (RSP11118)
  20. 0.368 Golden Goat 2 (RSP10991)

Nearest genetic relative in Phylos dataset

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

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