AVIDEKEL 2.0

RSP 11174

Grower: TIkun Olam

General Information

Sample Name
AVI/MIDNIGHT
Accession Date
June 24, 2019
Reported Plant Sex
Female

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: 1.22%
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: 0.0432
male female RSP11174

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)

Gene HGVS.c HGVS.p Annotation Annotation Impact Contig Contig Pos Ref/Alt Var Freq
THCAS c.373G>C p.Val125Leu missense variant moderate contig741 4417455

IGV: Start, Jump

C/G
NGS:
0.050
C90:
0.000

Variants (Select Genes of Interest)

PKSG-4a

UniProt

c.617A>G p.Tyr206Cys missense variant moderate contig700 1938028

IGV: Start, Jump

A/G
NGS:
0.075
C90:
0.000
PKSG-4a

UniProt

c.626_628delATA p.Asn209del disruptive inframe deletion moderate contig700 1938032

IGV: Start, Jump

CAAT/C
NGS:
0.075
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
PKSG-2a

UniProt

c.31A>T p.Thr11Ser missense variant moderate contig700 1945603

IGV: Start, Jump

T/A
NGS:
0.763
C90:
0.876
PKSG-2b

UniProt

c.1152T>A p.Asn384Lys missense variant moderate contig700 1950486

IGV: Start, Jump

A/T
NGS:
0.715
C90:
0.895
PKSG-2b

UniProt

c.1132C>G p.Leu378Val missense variant moderate contig700 1950506

IGV: Start, Jump

G/C
NGS:
0.717
C90:
0.000
PKSG-2b

UniProt

c.1117A>G p.Ile373Val missense variant moderate contig700 1950521

IGV: Start, Jump

T/C
NGS:
0.807
C90:
0.981
PKSG-2b

UniProt

c.948T>G p.Asp316Glu missense variant moderate contig700 1950690

IGV: Start, Jump

A/C
NGS:
0.456
C90:
0.000
PKSG-2b

UniProt

c.945T>G p.Ser315Arg missense variant moderate contig700 1950693

IGV: Start, Jump

A/C
NGS:
0.454
C90:
0.000
PKSG-2b

UniProt

c.944G>A p.Ser315Asn missense variant moderate contig700 1950694

IGV: Start, Jump

C/T
NGS:
0.445
C90:
0.000
PKSG-2b

UniProt

c.934C>G p.His312Asp missense variant moderate contig700 1950704

IGV: Start, Jump

G/C
NGS:
0.410
C90:
0.000
PKSG-2b

UniProt

c.31A>T p.Thr11Ser missense variant moderate contig700 1951851

IGV: Start, Jump

T/A
NGS:
0.844
C90:
0.880
PKSG-2b

UniProt

c.-2_1dupATA start lost & conservative inframe insertion high contig700 1951880

IGV: Start, Jump

A/ATAT
NGS:
0.410
C90:
0.000
PKSG-4b

UniProt

c.496A>G p.Lys166Glu missense variant moderate contig700 2721177

IGV: Start, Jump

T/C
NGS:
0.651
C90:
0.684
PKSG-4b

UniProt

c.489delT p.Phe163fs frameshift variant high contig700 2721183

IGV: Start, Jump

CA/C
NGS:
0.792
C90:
0.761
PKSG-4b

UniProt

c.485A>G p.Lys162Arg missense variant moderate contig700 2721188

IGV: Start, Jump

T/C
NGS:
0.643
C90:
0.301
PKSG-4b

UniProt

c.431T>G p.Val144Gly missense variant moderate contig700 2721242

IGV: Start, Jump

A/C
NGS:
0.575
C90:
0.679
PKSG-4b

UniProt

c.419A>G p.Asp140Gly missense variant moderate contig700 2721254

IGV: Start, Jump

T/C
NGS:
0.430
C90:
0.440
PKSG-4b

UniProt

c.352_355delACAG p.Thr118fs frameshift variant high contig700 2721317

IGV: Start, Jump

CCTGT/C
NGS:
0.529
C90:
0.000
PKSG-4b

UniProt

c.323A>G p.Glu108Gly missense variant moderate contig700 2721350

IGV: Start, Jump

T/C
NGS:
0.469
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
aPT4

UniProt

c.302A>G p.Asn101Ser missense variant moderate contig121 2829099

IGV: Start, Jump

A/G
NGS:
0.349
C90:
0.000
aPT4

UniProt

c.1168T>C p.Tyr390His missense variant moderate contig121 2833503

IGV: Start, Jump

T/C
NGS:
0.546
C90:
0.000
aPT1

UniProt

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

IGV: Start, Jump

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

UniProt

c.82_93delGTAACCGGAACT p.Val28_Thr31del conservative inframe deletion moderate contig95 1989748

IGV: Start, Jump

CGTAACCGGAACT/C
NGS:
0.805
C90:
0.000
HDS-2

UniProt

c.127T>G p.Ser43Ala missense variant moderate contig95 1989794

IGV: Start, Jump

T/G
NGS:
0.721
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.075 0.150 0.225 0.300
clone distance sibling distance more distant
  1. 0.182 Cbot-2019-001 (RSP11129)
  2. 0.188 101st AIRBORN CBD (RSP11350)
  3. 0.202 CANNATONIC (RSP11349)
  4. 0.202 Queen Dream (RSP11278)
  5. 0.210 Cbot-2019-005 (RSP11133)
  6. 0.227 UP Sunrise (RSP10989)
  7. 0.235 Cbot-2019-003 (RSP11131)
  8. 0.250 Wife (RSP11148)
  9. 0.250 Queen Dream CBG (RSP11297)
  10. 0.251 Queen Dream CBG (RSP11293)
  11. 0.260 T S A G E (RSP11351)
  12. 0.264 Cherry Blossom (RSP11301)
  13. 0.268 Blue Dream (RSP11009)
  14. 0.268 Queen Dream CBG (RSP11295)
  15. 0.269 Blue Dream (RSP11007)
  16. 0.270 RINGO S ANGEL (RSP10085)
  17. 0.273 Blue Dream (RSP11006)
  18. 0.274 Queen Dream CBG (RSP11275)
  19. 0.277 Blue Dream (RSP11004)
  20. 0.281 Liberty Haze (RSP11000)

Nearest genetic relatives (Base Tree)

0 0.092 0.183 0.275 0.367
clone distance sibling distance more distant
  1. 0.189 Cbot-2019-001 (RSP11129)
  2. 0.213 Cbot-2019-005 (RSP11133)
  3. 0.231 UP Sunrise (RSP10989)
  4. 0.281 Cbot-2019-004 (RSP11132)
  5. 0.294 Blue Dream (RSP11033)
  6. 0.297 Liberty Haze (RSP11000)
  7. 0.307 RKM-2018-028 (RSP11120)
  8. 0.309 Cherry (RSP11143)
  9. 0.312 Cbot-2019-006 (RSP11134)
  10. 0.314 Blueberry Cheesecake (RSP10684)
  11. 0.317 Kush Hemp E1 (RSP11128)
  12. 0.324 RKM-2018-018 (RSP11110)
  13. 0.331 Golden Goat 2 (RSP10991)
  14. 0.333 RKM-2018-009 (RSP11100)
  15. 0.334 Recon (RSP10755)
  16. 0.337 Kimbo Slice (RSP10997)
  17. 0.339 Italian Kiss (RSP11034)
  18. 0.339 RKM-2018-020 (RSP11112)
  19. 0.340 RKM-2018-023 (RSP11115)
  20. 0.341 RKM-2018-033 (RSP11125)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.458 Red Eye OG (RSP11190)
  2. 0.457 Cherry Blossom (RSP11326)
  3. 0.448 Cherry Blossom (RSP11317)
  4. 0.447 Star Dawg (RSP11352)
  5. 0.445 Cherry Blossom (RSP11335)
  6. 0.444 Cherry Blossom (RSP11308)
  7. 0.438 Eletta Campana (RSP11209)
  8. 0.437 RKM-2018-022 (RSP11114)
  9. 0.436 Feral (RSP11205)
  10. 0.434 White Label 1 (RSP11336)
  11. 0.433 Tiborszallasie (RSP11210)
  12. 0.433 MENDO BREATH (RSP11242)
  13. 0.429 RKM-2018-026 (RSP11118)
  14. 0.427 CS (RSP11208)
  15. 0.426 RKM-2018-034 (RSP11126)
  16. 0.426 Feral (RSP11206)
  17. 0.426 Gorilla Cookies (RSP11231)
  18. 0.425 RKM-2018-019 (RSP11111)
  19. 0.425 Carmagnola (RSP11202)
  20. 0.423 Garlic (RSP11341)

Most genetically distant strains (Base Tree)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.447 RKM-2018-022 (RSP11114)
  2. 0.432 RKM-2018-026 (RSP11118)
  3. 0.430 RKM-2018-002 (RSP11093)
  4. 0.426 RKM-2018-034 (RSP11126)
  5. 0.425 RKM-2018-019 (RSP11111)
  6. 0.423 Skywalker OG (RSP10837)
  7. 0.419 Carmagnola (RSP11037)
  8. 0.417 Feral (RSP10890)
  9. 0.409 Santhica27 (RSP11047)
  10. 0.401 Monoica (RSP10241)
  11. 0.398 Fedora 17 (RSP10661)
  12. 0.396 Cherry (RSP11142)
  13. 0.394 Kyrgyz Gold (RSP11054)
  14. 0.394 Lovrin (RSP10658)
  15. 0.389 Futura 75 (RSP10664)
  16. 0.387 Tisza (RSP11044)
  17. 0.386 KYRG-11 (RSP11051)
  18. 0.384 Ivory (RSP10668)
  19. 0.384 Carmagnola (RSP10979)
  20. 0.383 USO 31 (RSP10981)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4448694
Overlapping SNPs:
98
Concordance:
77

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495181
Overlapping SNPs:
14
Concordance:
14

Blockchain Registration Information

Transaction ID
6b98482c958fada01949362dea4a9f545074a2b568df341b44edf592da59fc7a
Stamping Certificate
Download PDF (857.4 KB)
SHASUM Hash
ee71cb9ffd2a8d9e64028186c2887ed661b40e0dce9e0f522b5d731fd0c575e8
QR code for RSP11174

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