Alpine Rocket

SRR 14708266

Grower: Lanzhou University, Guangpeng Ren

General Information

Sample Name
ART
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: 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
Unknown

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: 1.14%
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: 0.0164
male female SRR14708266

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.3209A>G p.Gln1070Arg missense variant moderate contig2621 343252

IGV: Start, Jump

A/G
NGS:
0.103
C90:
0.885
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.229G>A p.Gly77Ser missense variant moderate contig700 2724206

IGV: Start, Jump

C/T
NGS:
0.042
C90:
0.000
PKSG-4b

UniProt

c.216G>C p.Leu72Phe missense variant moderate contig700 2724219

IGV: Start, Jump

C/G
NGS:
0.044
C90:
0.000
PKSG-4b

UniProt

c.206T>C p.Leu69Ser missense variant moderate contig700 2724229

IGV: Start, Jump

A/G
NGS:
0.044
C90:
0.000
ELF3

UniProt

c.358G>A p.Gly120Arg missense variant moderate contig97 242064

IGV: Start, Jump

G/A
NGS:
0.099
C90:
0.493
ELF3

UniProt

c.1230-2_1230-1delAG splice acceptor variant & intron variant high contig97 243676

IGV: Start, Jump

TAG/T
NGS:
0.088
C90:
0.450
ELF3

UniProt

c.1966C>G p.Pro656Ala missense variant moderate contig97 244797

IGV: Start, Jump

C/G
NGS:
0.123
C90:
0.632
ELF3

UniProt

c.2141C>G p.Pro714Arg missense variant moderate contig97 244972

IGV: Start, Jump

C/G
NGS:
0.088
C90:
0.335
AAE1-2

UniProt

c.688G>A p.Asp230Asn missense variant moderate contig81 209650

IGV: Start, Jump

G/A
NGS:
0.018
C90:
0.000
PHL-1

UniProt

c.1387A>G p.Thr463Ala missense variant moderate contig1439 1489811

IGV: Start, Jump

T/C
NGS:
0.107
C90:
0.904
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
HDS-1

UniProt

c.1378G>A p.Val460Ile missense variant moderate contig1891 886370

IGV: Start, Jump

C/T
NGS:
0.167
C90:
0.000
aPT4

UniProt

c.1111C>A p.Leu371Ile missense variant moderate contig121 2833296

IGV: Start, Jump

C/A
NGS:
0.044
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
FLD

UniProt

c.2964C>A p.Asp988Glu missense variant moderate contig1450 2044029

IGV: Start, Jump

G/T
NGS:
0.057
C90:
0.464
AAE1-3

UniProt

c.634G>C p.Gly212Arg missense variant moderate contig976 1083220

IGV: Start, Jump

C/G
NGS:
0.116
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.033 0.067 0.100 0.133
clone distance sibling distance more distant
  1. 0.011 B52 (SRR14708255)
  2. 0.070 AOAC MI 597 (RSP11761)
  3. 0.071 Blue Dream (RSP11004)
  4. 0.075 AOAC MI 501 (RSP11748)
  5. 0.077 AOAC MI 599 (RSP11762)
  6. 0.078 AOAC MI 504 (RSP11749)
  7. 0.081 AOAC MI 569 (RSP11759)
  8. 0.081 AOAC MI 588 (RSP11760)
  9. 0.082 AOAC MI 535 (RSP11754)
  10. 0.082 AOAC MI 548 (RSP11757)
  11. 0.083 AOAC MI 533 (RSP11753)
  12. 0.083 AOAC MI 542 (RSP11755)
  13. 0.084 AOAC MI 508 (RSP11750)
  14. 0.084 AOAC MI 532 (RSP11752)
  15. 0.086 AOAC MI 545 (RSP11756)
  16. 0.086 AOAC MI 567 (RSP11758)
  17. 0.088 Serious Happiness (RSP10763)
  18. 0.096 Blue Dream (RSP11007)
  19. 0.097 Doug s Varin (RSP11243)
  20. 0.104 Electra (RSP11366)

Nearest genetic relatives (Base Tree)

0 0.058 0.117 0.175 0.233
clone distance sibling distance more distant
  1. 0.089 Liberty Haze (RSP11000)
  2. 0.139 UP Sunrise (RSP10989)
  3. 0.171 RKM-2018-009 (RSP11100)
  4. 0.173 Blueberry Cheesecake (RSP10684)
  5. 0.174 Gold Cracker (RSP11048)
  6. 0.186 Hermaphrodite Research Sample1 (RSP11049)
  7. 0.189 RKM-2018-005 (RSP11096)
  8. 0.190 Cbot-2019-001 (RSP11129)
  9. 0.194 RKM-2018-027 (RSP11119)
  10. 0.206 RKM-2018-031 (RSP11123)
  11. 0.208 Cbot-2019-006 (RSP11134)
  12. 0.210 Blue Dream (RSP11033)
  13. 0.210 Sour Raspberry (RSP10551)
  14. 0.212 QUEEN JESUS (RSP10105)
  15. 0.216 Recon (RSP10755)
  16. 0.217 Italian Kiss (RSP11034)
  17. 0.222 Hermaphrodite ResearchSample2 (RSP11050)
  18. 0.225 RKM-2018-019 (RSP11111)
  19. 0.227 RKM-2018-022 (RSP11114)
  20. 0.228 RKM-2018-018 (RSP11110)

Most genetically distant strains (All Samples)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.411 JL yellow (RSP11075)
  2. 0.389 Tanao Sri-white 80 (RSP11621)
  3. 0.382 JL 3rd Gen Mother (RSP11197)
  4. 0.364 USO31 (RSP10233)
  5. 0.363 R1in136 (SRR14708226)
  6. 0.362 JL 3rd Gen Mother (RSP11214)
  7. 0.362 Unknown- Cherry Wine - 001 (RSP11268)
  8. 0.360 CS (RSP11208)
  9. 0.359 80E (RSP11213)
  10. 0.353 Red Eye OG (RSP11190)
  11. 0.352 Northern Lights (RSP11501)
  12. 0.351 JL 4th Gen 4 (RSP11198)
  13. 0.351 JL 4th Gen 5 (RSP11199)
  14. 0.349 Unknown- Cherry Wine - 004 (RSP11271)
  15. 0.347 Skywalker OG (RSP10837)
  16. 0.345 Unknown- Cherry Wine - 003 (RSP11270)
  17. 0.343 Feral (RSP11205)
  18. 0.343 Cherry Blossom (RSP11328)
  19. 0.341 Monoica (RSP10241)
  20. 0.340 JL 4th Gen 1 (RSP11193)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.417 JL yellow (RSP11075)
  2. 0.353 Monoica (RSP10241)
  3. 0.346 Cbot-2019-005 (RSP11133)
  4. 0.342 Skywalker OG (RSP10837)
  5. 0.337 Fedora 17 (RSP10661)
  6. 0.328 RKM-2018-034 (RSP11126)
  7. 0.316 RKM-2018-026 (RSP11118)
  8. 0.305 Ivory (RSP10668)
  9. 0.304 Futura 75 (RSP10664)
  10. 0.303 Carmagnola (RSP10979)
  11. 0.302 Feral (RSP10890)
  12. 0.301 Black Beauty (RSP11035)
  13. 0.300 Cherry (RSP11142)
  14. 0.300 Santhica27 (RSP11047)
  15. 0.290 Tisza (RSP11044)
  16. 0.289 Carmagnola (RSP11037)
  17. 0.285 Kyrgyz Gold (RSP11054)
  18. 0.277 The Gift (RSP10988)
  19. 0.276 Golden Goat 2 (RSP10991)
  20. 0.275 Jiangji (RSP10653)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4448769
Overlapping SNPs:
9
Concordance:
9

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495169
Overlapping SNPs:
2
Concordance:
2
QR code for SRR14708266

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