Advanced Strain Search

VIR 483

SRR 14708239

Grower: Lanzhou University, Guangpeng Ren

General Information

Sample Name
UTT2
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 III

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: 1.27%
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: 0.0212
male female SRR14708239

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)
PHL-2 c.44G>A p.Arg15Lys missense variant moderate contig2621 337613

IGV: Start, Jump

G/A
NGS:
0.015
C90:
0.167
PHL-2 c.1837G>A p.Glu613Lys missense variant moderate contig2621 341115

IGV: Start, Jump

G/A
NGS:
0.009
C90:
0.000
PKSG-2a

UniProt

c.67T>A p.Phe23Ile missense variant moderate contig700 1945567

IGV: Start, Jump

A/T
NGS:
0.825
C90:
0.904
DXR-2

UniProt

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

IGV: Start, Jump

G/C
NGS:
0.182
C90:
0.550
ELF3

UniProt

c.574A>G p.Asn192Asp missense variant moderate contig97 242280

IGV: Start, Jump

A/G
NGS:
0.042
C90:
0.579
aPT1

UniProt

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

IGV: Start, Jump

ATGT/A
NGS:
0.118
C90:
0.311
aPT1

UniProt

c.406A>G p.Ile136Val missense variant moderate contig121 2839605

IGV: Start, Jump

A/G
NGS:
0.579
C90:
0.761
AAE1-2

UniProt

c.409C>T p.Arg137Cys missense variant moderate contig81 209371

IGV: Start, Jump

C/T
NGS:
0.009
C90:
0.000
Edestin

UniProt

c.16T>C p.Ser6Pro missense variant moderate contig850 3065274

IGV: Start, Jump

A/G
NGS:
0.059
C90:
0.000
HDS-1

UniProt

c.56C>G p.Ala19Gly missense variant moderate contig1891 889336

IGV: Start, Jump

G/C
NGS:
0.125
C90:
0.943
PIE1-2

UniProt

c.710C>T p.Pro237Leu missense variant moderate contig1460 1193804

IGV: Start, Jump

G/A
NGS:
0.072
C90:
0.866
PIE1-2

UniProt

c.706T>C p.Tyr236His missense variant moderate contig1460 1193808

IGV: Start, Jump

A/G
NGS:
0.059
C90:
0.737
EMF2

UniProt

c.1205C>T p.Ala402Val missense variant & splice region variant moderate contig954 3055694

IGV: Start, Jump

C/T
NGS:
0.015
C90:
0.053
EMF2

UniProt

c.1228A>G p.Ser410Gly missense variant moderate contig954 3055717

IGV: Start, Jump

A/G
NGS:
0.015
C90:
0.000
FT

UniProt

c.194A>T p.His65Leu missense variant moderate contig1561 3124618

IGV: Start, Jump

A/T
NGS:
0.000
C90:
0.000
FT

UniProt

c.196A>G p.Ile66Val missense variant moderate contig1561 3124620

IGV: Start, Jump

A/G
NGS:
0.004
C90:
0.033
aPT4

UniProt

c.153A>C p.Lys51Asn missense variant moderate contig121 2828809

IGV: Start, Jump

A/C
NGS:
0.375
C90:
0.000
aPT4

UniProt

c.198A>C p.Lys66Asn missense variant moderate contig121 2828854

IGV: Start, Jump

A/C
NGS:
0.044
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
AAE1-3

UniProt

c.101A>G p.Tyr34Cys missense variant moderate contig976 1083974

IGV: Start, Jump

T/C
NGS:
0.007
C90:
0.000
GGR

UniProt

c.637G>A p.Ala213Thr missense variant moderate contig2282 549629

IGV: Start, Jump

G/A
NGS:
0.000
C90:
0.000

Nearest genetic relatives (All Samples)

clone distance sibling distance more distant
  1. 0.143 AOAC MI 501 (RSP11748)
  2. 0.148 AOAC MI 597 (RSP11761)
  3. 0.151 Durban Poison 1 (RSP11013)
  4. 0.152 Lift (RSP11378)
  5. 0.152 AOAC MI 599 (RSP11762)
  6. 0.153 Badger (RSP11614)
  7. 0.154 AOAC MI 508 (RSP11750)
  8. 0.156 AOAC MI 535 (RSP11754)
  9. 0.157 AOAC MI 548 (RSP11757)
  10. 0.157 AOAC MI 588 (RSP11760)
  11. 0.157 Serious Happiness (RSP10763)
  12. 0.159 AOAC MI 504 (RSP11749)
  13. 0.159 AOAC MI 533 (RSP11753)
  14. 0.159 AOAC MI 567 (RSP11758)
  15. 0.159 AOAC MI 545 (RSP11756)
  16. 0.160 AOAC MI 569 (RSP11759)
  17. 0.161 Domnesia (RSP11184)
  18. 0.164 Rest (RSP11377)
  19. 0.164 AOAC MI 542 (RSP11755)
  20. 0.167 VIR 483 (SRR14708240)

Nearest genetic relatives (Base Tree)

clone distance sibling distance more distant
  1. 0.211 KYRG-11 (RSP11051)
  2. 0.221 Italian Kiss (RSP11034)
  3. 0.222 Tisza (RSP10659)
  4. 0.229 Golden Goat 2 (RSP10991)
  5. 0.229 Liberty Haze (RSP11000)
  6. 0.230 Blueberry Cheesecake (RSP10684)
  7. 0.231 Hermaphrodite Research Sample1 (RSP11049)
  8. 0.231 Lovrin (RSP10658)
  9. 0.236 Recon (RSP10755)
  10. 0.244 RKM-2018-019 (RSP11111)
  11. 0.244 RKM-2018-029 (RSP11121)
  12. 0.245 CST (RSP11002)
  13. 0.246 Kimbo Slice (RSP10997)
  14. 0.247 RKM-2018-020 (RSP11112)
  15. 0.250 Durban Poison (RSP11014)
  16. 0.250 Skunk 18 (RSP11038)
  17. 0.250 Tisza (RSP11044)
  18. 0.250 Santhica27 (RSP11047)
  19. 0.250 Hermaphrodite ResearchSample2 (RSP11050)
  20. 0.256 RKM-2018-005 (RSP11096)

Most genetically distant strains (All Samples)

clone distance sibling distance more distant
  1. 0.425 JL 4th Gen 1 (RSP11193)
  2. 0.420 JL yellow (RSP11075)
  3. 0.398 JL 3rd Gen Father (RSP11196)
  4. 0.392 JL 3rd Gen Mother (RSP11197)
  5. 0.390 JL 4th Gen 5 (RSP11199)
  6. 0.388 Red Eye OG (RSP11190)
  7. 0.385 JL 4th Gen 6 (RSP11200)
  8. 0.382 80E (RSP11213)
  9. 0.377 JL 3rd Gen Mother (RSP11214)
  10. 0.360 JL 4th Gen 2 (RSP11194)
  11. 0.360 Skywalker OG (RSP10837)
  12. 0.356 Abacus (RSP11266)
  13. 0.351 Right Mark (RSP11628)
  14. 0.348 Sour Raspberry (RSP10551)
  15. 0.347 Grape Stomper (RSP11180)
  16. 0.341 SFVxTK (RSP11072)
  17. 0.340 Tanao Sri-white 80 (RSP11621)
  18. 0.340 Chem 91 (RSP11185)
  19. 0.339 JL 4th Gen 4 (RSP11198)
  20. 0.339 White Label 1 (RSP11336)

Most genetically distant strains (Base Tree)

clone distance sibling distance more distant
  1. 0.437 JL yellow (RSP11075)
  2. 0.382 Sour Raspberry (RSP10551)
  3. 0.342 Skywalker OG (RSP10837)
  4. 0.340 Kush Hemp E1 (RSP11128)
  5. 0.325 Blueberry Cheesecake (RSP10680)
  6. 0.323 Carmagnola (RSP10979)
  7. 0.321 RKM-2018-002 (RSP11093)
  8. 0.319 RKM-2018-028 (RSP11120)
  9. 0.318 Cbot-2019-006 (RSP11134)
  10. 0.316 Cbot-2019-004 (RSP11132)
  11. 0.313 RKM-2018-031 (RSP11123)
  12. 0.313 RKM-2018-018 (RSP11110)
  13. 0.306 Ivory (RSP10668)
  14. 0.304 Cbot-2019-005 (RSP11133)
  15. 0.304 Jiangji (RSP10653)
  16. 0.302 Kyrgyz Gold (RSP11054)
  17. 0.299 RKM-2018-009 (RSP11100)
  18. 0.298 Tygra (RSP10667)
  19. 0.296 Blue Dream (RSP11033)
  20. 0.296 QUEEN JESUS (RSP10105)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8346604
Overlapping SNPs:
5
Concordance:
5

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495167
Overlapping SNPs:
2
Concordance:
2
QR code for SRR14708239

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