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: 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 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 0.067 0.133 0.200 0.267
clone distance sibling distance more distant
  1. 0.214 VIR 469 (SRR14708241)
  2. 0.221 VIR 469 (SRR14708243)
  3. 0.223 Futura 75 (RSP10664)
  4. 0.224 Tygra (RSP10667)
  5. 0.225 VIR 201 (SRR14708232)
  6. 0.226 Santhica27 (RSP10056)
  7. 0.226 R1in136 (SRR14708227)
  8. 0.227 Carmagnola (RSP10976)
  9. 0.228 Carmagnola (RSP11037)
  10. 0.229 Carmagnola (RSP10982)
  11. 0.233 Carmagnola (RSP10978)
  12. 0.233 Santhica 27 (RSP10665)
  13. 0.235 Ivory (RSP10668)
  14. 0.236 Carmagnola (RSP10977)
  15. 0.236 Carmagnola (RSP10980)
  16. 0.236 Lovrin (RSP10658)
  17. 0.236 C-930 lot 211005 (RSP12603)
  18. 0.236 Santhica27 (RSP11046)
  19. 0.237 Fedora 17 (SRR14708222)
  20. 0.237 Tiborszallasie (RSP11210)

Nearest genetic relatives (Base Tree)

0 0.083 0.167 0.250 0.333
clone distance sibling distance more distant
  1. 0.220 Tygra (RSP10667)
  2. 0.223 Futura 75 (RSP10664)
  3. 0.225 Carmagnola (RSP11037)
  4. 0.228 Lovrin (RSP10658)
  5. 0.228 Fedora 17 (RSP10661)
  6. 0.236 Carmagnola (RSP10979)
  7. 0.240 Tisza (RSP11044)
  8. 0.243 Santhica27 (RSP11047)
  9. 0.245 Ivory (RSP10668)
  10. 0.249 USO 31 (RSP10981)
  11. 0.249 Tisza (RSP10659)
  12. 0.253 Monoica (RSP10241)
  13. 0.257 Feral (RSP10890)
  14. 0.264 Kyrgyz Gold (RSP11054)
  15. 0.269 KYRG-11 (RSP11051)
  16. 0.294 Jiangji (RSP10653)
  17. 0.307 Recon (RSP10755)
  18. 0.317 RKM-2018-029 (RSP11121)
  19. 0.324 Kimbo Slice (RSP10997)
  20. 0.325 Liberty Haze (RSP11000)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.453 Cherry Blossom (RSP11301)
  2. 0.444 Cherry Blossom (RSP11300)
  3. 0.441 Cherry Blossom (RSP11323)
  4. 0.437 Cherry Blossom (RSP11318)
  5. 0.436 Cherry Blossom (RSP11312)
  6. 0.434 Cherry Blossom (RSP11328)
  7. 0.434 Unknown--Cherry Wine---001- (RSP11268)
  8. 0.434 Cherry Blossom (RSP11311)
  9. 0.433 Cherry Blossom (RSP11298)
  10. 0.429 Cherry Blossom (RSP11331)
  11. 0.426 Chem 91 (RSP11185)
  12. 0.422 Cherry Blossom (RSP11325)
  13. 0.420 Cherry Blossom (RSP11332)
  14. 0.420 Cherry Blossom (RSP11334)
  15. 0.419 Super Sour Diesel (RSP11191)
  16. 0.418 Chematonic -Cannatonic x Chemdawg- (RSP11394)
  17. 0.418 Cherry Blossom (RSP11309)
  18. 0.417 Cherry Blossom (RSP11321)
  19. 0.417 Unknown--Cherry Wine---003- (RSP11270)
  20. 0.415 RKM-2018-002 (RSP11093)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.416 Cbot-2019-005 (RSP11133)
  2. 0.398 RKM-2018-002 (RSP11093)
  3. 0.396 JL yellow (RSP11075)
  4. 0.391 RKM-2018-006 (RSP11097)
  5. 0.388 Kush Hemp E1 (RSP11128)
  6. 0.388 RKM-2018-028 (RSP11120)
  7. 0.387 RKM-2018-026 (RSP11118)
  8. 0.386 RKM-2018-027 (RSP11119)
  9. 0.382 RKM-2018-022 (RSP11114)
  10. 0.375 Cbot-2019-004 (RSP11132)
  11. 0.375 RKM-2018-020 (RSP11112)
  12. 0.375 Hermaphrodite Research Sample1 (RSP11049)
  13. 0.375 Skywalker OG (RSP10837)
  14. 0.374 RKM-2018-003 (RSP11094)
  15. 0.372 RKM-2018-032 (RSP11124)
  16. 0.371 Cherry (RSP11142)
  17. 0.370 RKM-2018-023 (RSP11115)
  18. 0.370 RKM-2018-033 (RSP11125)
  19. 0.369 Cbot-2019-001 (RSP11129)
  20. 0.366 Gold Cracker (RSP11048)

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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