Fedora 17

RSP 10661

Grower: CSU

General Information

Sample Name
Fedora 17 5
Accession Date
February 14, 2017
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: Uncommon
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: 1.36%
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: 0.0492
male female RSP10661

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
CBDAS c.221C>G p.Thr74Ser missense variant moderate contig1772 2082447

IGV: Start, Jump

C/G
NGS:
0.136
C90:
0.057

Variants (Select Genes of Interest)

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.490delG p.Glu164fs frameshift variant high contig700 2721182

IGV: Start, Jump

TC/T
NGS:
0.002
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.489T>A p.Phe163Leu missense variant moderate contig700 2721184

IGV: Start, Jump

A/T
NGS:
0.002
C90:
0.000
aPT4

UniProt

c.517A>T p.Ile173Leu missense variant & splice region variant moderate contig121 2830795

IGV: Start, Jump

A/T
NGS:
0.022
C90:
0.000
aPT4

UniProt

c.757G>T p.Val253Leu missense variant moderate contig121 2831364

IGV: Start, Jump

G/T
NGS:
0.039
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.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
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 0.058 0.117 0.175 0.233
clone distance sibling distance more distant
  1. 0.168 Tygra (RSP10667)
  2. 0.172 USO 31 (RSP10983)
  3. 0.179 Santhica27 (RSP11046)
  4. 0.180 Santhica27 (RSP10056)
  5. 0.183 Santhica27 (RSP11047)
  6. 0.184 USO 31 (RSP10981)
  7. 0.185 Santhica 27 (RSP10665)
  8. 0.187 KYRG-151 (RSP11052)
  9. 0.188 Lovrin (RSP10658)
  10. 0.196 USO31 (RSP10233)
  11. 0.204 Fedora 17 (RSP11203)
  12. 0.204 Carmagnola USO 31 (RSP11204)
  13. 0.206 Futura 75 (RSP10664)
  14. 0.208 Monoica (RSP10241)
  15. 0.213 Tisza (RSP11045)
  16. 0.214 Ivory (RSP10668)
  17. 0.214 Carmagnola (RSP10982)
  18. 0.216 Tisza (RSP10659)
  19. 0.217 KYRG-21 (RSP11053)
  20. 0.217 Diana (RSP10235)

Nearest genetic relatives (Base Tree)

0 0.083 0.167 0.250 0.333
clone distance sibling distance more distant
  1. 0.179 Santhica27 (RSP11047)
  2. 0.181 Tygra (RSP10667)
  3. 0.188 USO 31 (RSP10981)
  4. 0.193 Lovrin (RSP10658)
  5. 0.199 Monoica (RSP10241)
  6. 0.199 Futura 75 (RSP10664)
  7. 0.204 Ivory (RSP10668)
  8. 0.210 Tisza (RSP10659)
  9. 0.217 Tisza (RSP11044)
  10. 0.227 Kyrgyz Gold (RSP11054)
  11. 0.233 Carmagnola (RSP10979)
  12. 0.234 KYRG-11 (RSP11051)
  13. 0.234 Carmagnola (RSP11037)
  14. 0.243 Feral (RSP10890)
  15. 0.269 Jiangji (RSP10653)
  16. 0.290 Black Beauty (RSP11035)
  17. 0.290 Kimbo Slice (RSP10997)
  18. 0.297 Recon (RSP10755)
  19. 0.308 RKM-2018-029 (RSP11121)
  20. 0.308 Hermaphrodite ResearchSample2 (RSP11050)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.451 Cherry Blossom (RSP11323)
  2. 0.446 Cherry Blossom (RSP11318)
  3. 0.439 Cherry Blossom (RSP11312)
  4. 0.433 Cherry Blossom (RSP11328)
  5. 0.430 Cherry Blossom (RSP11300)
  6. 0.423 Cherry Blossom (RSP11298)
  7. 0.422 Cherry Blossom (RSP11311)
  8. 0.421 Cherry Blossom (RSP11301)
  9. 0.419 Cherry Blossom (RSP11334)
  10. 0.415 Unknown- Cherry Wine - 001 (RSP11268)
  11. 0.414 Cherry Blossom (RSP11333)
  12. 0.414 Cherry Blossom (RSP11331)
  13. 0.413 Cherry Blossom (RSP11308)
  14. 0.411 Cherry Blossom (RSP11335)
  15. 0.411 Cherry Blossom (RSP11314)
  16. 0.410 Cherry Blossom (RSP11325)
  17. 0.409 Cherry Blossom (RSP11332)
  18. 0.409 Cherry Blossom (RSP11310)
  19. 0.406 Cherry Blossom (RSP11306)
  20. 0.406 Cherry Blossom (RSP11330)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.402 Cbot-2019-005 (RSP11133)
  2. 0.363 RKM-2018-002 (RSP11093)
  3. 0.360 Skunk 18 (RSP11038)
  4. 0.358 JL yellow (RSP11075)
  5. 0.353 Cherry (RSP11143)
  6. 0.352 RKM-2018-006 (RSP11097)
  7. 0.350 Kush Hemp E1 (RSP11128)
  8. 0.350 Blueberry Cheesecake (RSP10672)
  9. 0.350 RKM-2018-023 (RSP11115)
  10. 0.350 RKM-2018-028 (RSP11120)
  11. 0.349 Cbot-2019-004 (RSP11132)
  12. 0.348 Cbot-2019-001 (RSP11129)
  13. 0.347 RKM-2018-003 (RSP11094)
  14. 0.347 RKM-2018-018 (RSP11110)
  15. 0.343 Cherry (RSP11142)
  16. 0.342 RKM-2018-022 (RSP11114)
  17. 0.339 RKM-2018-032 (RSP11124)
  18. 0.338 Hermaphrodite Research Sample1 (RSP11049)
  19. 0.337 UP Sunrise (RSP10989)
  20. 0.336 RKM-2018-009 (RSP11100)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4448673
Overlapping SNPs:
110
Concordance:
79

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495209
Overlapping SNPs:
4
Concordance:
3

Blockchain Registration Information

Transaction ID
6f9d74c60a1862be05b8f9f0a8b70f72575731e425019ec722b9233521506212
Stamping Certificate
Download PDF (851.9 KB)
SHASUM Hash
10f724a99889959f3d5afa9686013b4c1aa8a51aabadb099ae1ae8947df4ba13
QR code for RSP10661

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