Feral

RSP 10892

Grower: John McKay-Colorado State University

General Information

Sample Name
Merino_S_8_CSU
Accession Date
May 3, 2017
Reported Plant Sex
Male

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: 1.26%
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: 0.1001
male female RSP10892

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)

GPPs1

UniProt

c.160A>G p.Lys54Glu missense variant moderate contig676 168409

IGV: Start, Jump

A/G
NGS:
0.026
C90:
0.000
PKSG-2a

UniProt

c.1117A>G p.Ile373Val missense variant moderate contig700 1944273

IGV: Start, Jump

T/C
NGS:
0.101
C90:
0.967
PKSG-2a

UniProt

c.948T>G p.Asp316Glu missense variant moderate contig700 1944442

IGV: Start, Jump

A/C
NGS:
0.079
C90:
0.000
PKSG-2a

UniProt

c.945T>G p.Ser315Arg missense variant moderate contig700 1944445

IGV: Start, Jump

A/C
NGS:
0.079
C90:
0.000
PKSG-2a

UniProt

c.944G>A p.Ser315Asn missense variant moderate contig700 1944446

IGV: Start, Jump

C/T
NGS:
0.079
C90:
0.000
PKSG-2a

UniProt

c.934C>G p.His312Asp missense variant moderate contig700 1944456

IGV: Start, Jump

G/C
NGS:
0.070
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.31A>T p.Thr11Ser missense variant moderate contig700 1951851

IGV: Start, Jump

T/A
NGS:
0.844
C90:
0.880
PKSG-4b

UniProt

c.544G>T p.Gly182Trp missense variant moderate contig700 2721129

IGV: Start, Jump

C/A
NGS:
0.055
C90:
0.000
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.353_354insCC p.Gly119fs frameshift variant high contig700 2721319

IGV: Start, Jump

T/TGG
NGS:
0.175
C90:
0.000
PKSG-4b

UniProt

c.338G>A p.Gly113Glu missense variant moderate contig700 2721335

IGV: Start, Jump

C/T
NGS:
0.046
C90:
0.000
DXR-2

UniProt

c.1319T>C p.Ile440Thr missense variant moderate contig380 285250

IGV: Start, Jump

A/G
NGS:
0.480
C90:
0.000
aPT4

UniProt

c.80A>G p.Lys27Arg missense variant moderate contig121 2828736

IGV: Start, Jump

A/G
NGS:
0.061
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.160A>C p.Thr54Pro missense variant moderate contig121 2835867

IGV: Start, Jump

A/C
NGS:
0.086
C90:
0.048
aPT1

UniProt

c.670T>A p.Ser224Thr missense variant moderate contig121 2840278

IGV: Start, Jump

T/A
NGS:
0.077
C90:
0.000
aPT1

UniProt

c.727G>T p.Glu243* stop gained high contig121 2841362

IGV: Start, Jump

G/T
NGS:
0.127
C90:
0.100
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

Nearest genetic relatives (All Samples)

0 0.067 0.133 0.200 0.267
clone distance sibling distance more distant
  1. 0.126 Feral (RSP11205)
  2. 0.136 Feral (RSP10891)
  3. 0.169 Feral (RSP10890)
  4. 0.215 Tisza (RSP10659)
  5. 0.218 Futura 75 (RSP10664)
  6. 0.221 USO 31 (RSP10981)
  7. 0.224 USO 31 (RSP10983)
  8. 0.225 Lovrin (RSP10658)
  9. 0.231 Carmagnola (RSP10982)
  10. 0.232 Monoica (RSP10241)
  11. 0.233 Kyrgyz Gold (RSP11054)
  12. 0.233 Santhica27 (RSP11046)
  13. 0.234 Feral (RSP11206)
  14. 0.234 USO31 (RSP10233)
  15. 0.235 Ivory (RSP10668)
  16. 0.236 KYRG-151 (RSP11052)
  17. 0.236 Tisza (RSP11045)
  18. 0.238 Tisza (RSP11044)
  19. 0.239 Fedora 17 (RSP10661)
  20. 0.239 Santhica27 (RSP11047)

Nearest genetic relatives (Base Tree)

0 0.092 0.183 0.275 0.367
clone distance sibling distance more distant
  1. 0.170 Feral (RSP10890)
  2. 0.223 Tisza (RSP10659)
  3. 0.228 Futura 75 (RSP10664)
  4. 0.229 USO 31 (RSP10981)
  5. 0.237 Monoica (RSP10241)
  6. 0.237 Tisza (RSP11044)
  7. 0.241 Lovrin (RSP10658)
  8. 0.241 Santhica27 (RSP11047)
  9. 0.242 Fedora 17 (RSP10661)
  10. 0.245 Ivory (RSP10668)
  11. 0.245 Kyrgyz Gold (RSP11054)
  12. 0.249 Carmagnola (RSP11037)
  13. 0.256 Tygra (RSP10667)
  14. 0.259 Carmagnola (RSP10979)
  15. 0.261 Jiangji (RSP10653)
  16. 0.265 KYRG-11 (RSP11051)
  17. 0.312 RKM-2018-029 (RSP11121)
  18. 0.316 Kimbo Slice (RSP10997)
  19. 0.322 Recon (RSP10755)
  20. 0.337 RKM-2018-026 (RSP11118)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.464 Cherry Blossom (RSP11312)
  2. 0.459 Cherry Blossom (RSP11300)
  3. 0.454 Cherry Blossom (RSP11323)
  4. 0.454 Cherry Blossom (RSP11318)
  5. 0.449 Cherry Blossom (RSP11298)
  6. 0.440 Cherry Blossom (RSP11316)
  7. 0.439 Cherry Blossom (RSP11325)
  8. 0.438 Cherry Blossom (RSP11301)
  9. 0.438 Cherry Blossom (RSP11331)
  10. 0.433 Cherry Blossom (RSP11328)
  11. 0.431 Cherry Blossom (RSP11309)
  12. 0.431 Cherry Blossom (RSP11299)
  13. 0.430 Cherry Blossom (RSP11332)
  14. 0.429 Cherry Blossom (RSP11319)
  15. 0.428 Cherry Blossom (RSP11321)
  16. 0.427 Cherry Blossom CBG (RSP11303)
  17. 0.427 Unknown- Cherry Wine - 002 (RSP11269)
  18. 0.426 Cherry Blossom (RSP11315)
  19. 0.425 Cherry Blossom (RSP11329)
  20. 0.422 Unknown- Cherry Wine - 003 (RSP11270)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.405 RKM-2018-028 (RSP11120)
  2. 0.400 Cbot-2019-005 (RSP11133)
  3. 0.399 RKM-2018-006 (RSP11097)
  4. 0.399 Skunk 18 (RSP11038)
  5. 0.397 Cbot-2019-004 (RSP11132)
  6. 0.396 RKM-2018-018 (RSP11110)
  7. 0.394 RKM-2018-002 (RSP11093)
  8. 0.387 UP Sunrise (RSP10989)
  9. 0.381 Hermaphrodite Research Sample1 (RSP11049)
  10. 0.379 JL yellow (RSP11075)
  11. 0.378 Kush Hemp E1 (RSP11128)
  12. 0.377 RKM-2018-003 (RSP11094)
  13. 0.377 RKM-2018-032 (RSP11124)
  14. 0.373 RKM-2018-027 (RSP11119)
  15. 0.373 RKM-2018-023 (RSP11115)
  16. 0.372 Cbot-2019-001 (RSP11129)
  17. 0.369 Blue Dream (RSP11033)
  18. 0.368 Cherry (RSP11143)
  19. 0.364 RKM-2018-022 (RSP11114)
  20. 0.364 RKM-2018-009 (RSP11100)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4448780
Overlapping SNPs:
50
Concordance:
31

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495196
Overlapping SNPs:
2
Concordance:
2

Blockchain Registration Information

Transaction ID
6ba1bbbc3b0e4e75c4bb0f610cb10cbfede77a623089f0a2c8efca8183686662
Stamping Certificate
Download PDF (864.0 KB)
SHASUM Hash
4b0a09c92091906d3e8eea2c929dd876352d7d27158fc77398d5335719732e44
QR code for RSP10892

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