VIR 469

SRR 14708242

Grower: Lanzhou University, Guangpeng Ren

General Information

Sample Name
KAK2
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: 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 III

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: 1.5%
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: 0.0645
male female SRR14708242

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)

OAC-2

UniProt

c.52G>T p.Ala18Ser missense variant moderate contig931 110287

IGV: Start, Jump

C/A
NGS:
0.000
C90:
0.014
ELF3

UniProt

c.1630A>G p.Thr544Ala missense variant moderate contig97 244461

IGV: Start, Jump

A/G
NGS:
0.103
C90:
0.545
aPT1

UniProt

c.95_97delGTT p.Cys32del disruptive inframe deletion moderate contig121 2835800

IGV: Start, Jump

ATGT/A
NGS:
0.118
C90:
0.311
AAE1-2

UniProt

c.1415G>A p.Ser472Asn missense variant moderate contig81 210377

IGV: Start, Jump

G/A
NGS:
0.070
C90:
0.000
AAE1-2

UniProt

c.1417A>G p.Thr473Ala missense variant moderate contig81 210379

IGV: Start, Jump

A/G
NGS:
0.070
C90:
0.000
AAE1-2

UniProt

c.1434G>T p.Glu478Asp missense variant moderate contig81 210396

IGV: Start, Jump

G/T
NGS:
0.075
C90:
0.000
AAE1-2

UniProt

c.1541T>C p.Val514Ala missense variant moderate contig81 210503

IGV: Start, Jump

T/C
NGS:
0.050
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
FLD

UniProt

c.2981T>C p.Met994Thr missense variant moderate contig1450 2044012

IGV: Start, Jump

A/G
NGS:
0.064
C90:
0.478
FLD

UniProt

c.2964C>A p.Asp988Glu missense variant moderate contig1450 2044029

IGV: Start, Jump

G/T
NGS:
0.057
C90:
0.464

Nearest genetic relatives (All Samples)

0 0.033 0.067 0.100 0.133
clone distance sibling distance more distant
  1. 0.060 AOAC MI 535 (RSP11754)
  2. 0.075 AOAC MI 504 (RSP11749)
  3. 0.076 AOAC MI 508 (RSP11750)
  4. 0.079 AOAC MI 545 (RSP11756)
  5. 0.079 AOAC MI 597 (RSP11761)
  6. 0.081 AOAC MI 599 (RSP11762)
  7. 0.082 AOAC MI 533 (RSP11753)
  8. 0.083 AOAC MI 567 (RSP11758)
  9. 0.085 AOAC MI 501 (RSP11748)
  10. 0.085 AOAC MI 588 (RSP11760)
  11. 0.086 AOAC MI 569 (RSP11759)
  12. 0.087 AOAC MI 532 (RSP11752)
  13. 0.087 AOAC MI 542 (RSP11755)
  14. 0.092 AOAC MI 548 (RSP11757)
  15. 0.111 Doug s Varin (RSP11243)
  16. 0.116 Badger (RSP11614)
  17. 0.125 Blue Dream (RSP11007)
  18. 0.125 Lift (RSP11378)
  19. 0.132 Durban Poison 1 (RSP11013)
  20. 0.133 Durban Poison 1 (RSP10996)

Nearest genetic relatives (Base Tree)

0 0.067 0.133 0.200 0.267
clone distance sibling distance more distant
  1. 0.133 UP Sunrise (RSP10989)
  2. 0.154 Blueberry Cheesecake (RSP10684)
  3. 0.184 Tygra (RSP10667)
  4. 0.192 Liberty Haze (RSP11000)
  5. 0.200 Durban Poison (RSP11014)
  6. 0.202 Hermaphrodite ResearchSample2 (RSP11050)
  7. 0.203 KYRG-11 (RSP11051)
  8. 0.216 CST (RSP11002)
  9. 0.222 RKM-2018-019 (RSP11111)
  10. 0.227 Jiangji (RSP10653)
  11. 0.237 Cbot-2019-001 (RSP11129)
  12. 0.239 RKM-2018-031 (RSP11123)
  13. 0.241 RKM-2018-029 (RSP11121)
  14. 0.243 Futura 75 (RSP10664)
  15. 0.243 Santhica27 (RSP11047)
  16. 0.244 QUEEN JESUS (RSP10105)
  17. 0.244 Feral (RSP10890)
  18. 0.246 Lovrin (RSP10658)
  19. 0.246 Recon (RSP10755)
  20. 0.246 Golden Goat 2 (RSP10991)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.466 80E (RSP11213)
  2. 0.417 JL yellow (RSP11075)
  3. 0.413 80E (RSP11211)
  4. 0.400 JL 4th Gen 5 (RSP11199)
  5. 0.397 Chematonic Cannatonic x Chemdawg (RSP11394)
  6. 0.391 JL 4th Gen 1 (RSP11193)
  7. 0.388 Red Eye OG (RSP11190)
  8. 0.387 JL 4th Gen 6 (RSP11200)
  9. 0.381 SFVxTK (RSP11072)
  10. 0.375 80E (RSP11212)
  11. 0.368 JL 3rd Gen Father (RSP11196)
  12. 0.367 JL 3rd Gen Mother (RSP11197)
  13. 0.361 Skywalker OG (RSP10837)
  14. 0.353 Tanao Sri-white 80 (RSP11621)
  15. 0.351 Northern Lights (RSP11501)
  16. 0.348 JL 4th Gen 2 (RSP11194)
  17. 0.348 RKM-2018-026 (RSP11118)
  18. 0.342 JL 4th Gen 4 (RSP11198)
  19. 0.342 JL 3rd Gen Mother (RSP11214)
  20. 0.341 Danny Noonan (RSP11070)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.414 JL yellow (RSP11075)
  2. 0.353 RKM-2018-002 (RSP11093)
  3. 0.349 Skywalker OG (RSP10837)
  4. 0.333 Cbot-2019-005 (RSP11133)
  5. 0.326 RKM-2018-026 (RSP11118)
  6. 0.322 RKM-2018-033 (RSP11125)
  7. 0.313 Kush Hemp E1 (RSP11128)
  8. 0.310 Black Beauty (RSP11035)
  9. 0.309 RKM-2018-006 (RSP11097)
  10. 0.305 Skunk 18 (RSP11038)
  11. 0.304 Ivory (RSP10668)
  12. 0.301 RKM-2018-034 (RSP11126)
  13. 0.299 Cbot-2019-004 (RSP11132)
  14. 0.298 Monoica (RSP10241)
  15. 0.293 RKM-2018-027 (RSP11119)
  16. 0.293 Hermaphrodite Research Sample1 (RSP11049)
  17. 0.284 RKM-2018-005 (RSP11096)
  18. 0.284 Pie Hoe (RSP11073)
  19. 0.282 USO 31 (RSP10981)
  20. 0.281 Sour Raspberry (RSP10551)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8346697
Overlapping SNPs:
10
Concordance:
9

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495233
Overlapping SNPs:
3
Concordance:
3
QR code for SRR14708242

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