XUM2

SRR 14708204

Grower: Lanzhou University, Guangpeng Ren

General Information

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
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: 1.93%
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: 0.0198
male female SRR14708204

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)

EMF1-2

UniProt

c.476T>C p.Leu159Pro missense variant moderate contig885 576

IGV: Start, Jump

T/C
NGS:
0.000
C90:
0.000
EMF1-2

UniProt

c.710A>C p.His237Pro missense variant moderate contig885 810

IGV: Start, Jump

A/C
NGS:
0.090
C90:
0.474
EMF1-2

UniProt

c.1148C>T p.Ala383Val missense variant moderate contig885 2034

IGV: Start, Jump

C/T
NGS:
0.007
C90:
0.000
EMF1-2

UniProt

c.1187T>C p.Leu396Ser missense variant moderate contig885 2073

IGV: Start, Jump

T/C
NGS:
0.026
C90:
0.000
EMF1-2

UniProt

c.1189G>A p.Ala397Thr missense variant moderate contig885 2075

IGV: Start, Jump

G/A
NGS:
0.007
C90:
0.000
EMF1-2

UniProt

c.1199G>A p.Arg400Lys missense variant moderate contig885 2085

IGV: Start, Jump

G/A
NGS:
0.007
C90:
0.000
EMF1-2

UniProt

c.1828A>G p.Ile610Val missense variant moderate contig885 2714

IGV: Start, Jump

A/G
NGS:
0.007
C90:
0.000
PHL-2 c.2783G>A p.Ser928Asn missense variant moderate contig2621 342826

IGV: Start, Jump

G/A
NGS:
0.107
C90:
0.890
PHL-2 c.3002A>G p.Tyr1001Cys missense variant moderate contig2621 343045

IGV: Start, Jump

A/G
NGS:
0.055
C90:
0.316
PHL-2 c.3033T>G p.Cys1011Trp missense variant moderate contig2621 343076

IGV: Start, Jump

T/G
NGS:
0.055
C90:
0.292
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
AAE1-1

UniProt

c.454A>G p.Lys152Glu missense variant moderate contig606 3243817

IGV: Start, Jump

T/C
NGS:
0.007
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
ELF3

UniProt

c.305G>A p.Arg102His missense variant moderate contig97 242011

IGV: Start, Jump

G/A
NGS:
0.002
C90:
0.000
ELF3

UniProt

c.1466G>A p.Ser489Asn missense variant moderate contig97 244297

IGV: Start, Jump

G/A
NGS:
0.123
C90:
0.000
ELF3

UniProt

c.1803_1805delTCA p.His601del disruptive inframe deletion moderate contig97 244625

IGV: Start, Jump

ACAT/A
NGS:
0.092
C90:
0.000
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.2203C>A p.His735Asn missense variant moderate contig97 245034

IGV: Start, Jump

C/A
NGS:
0.002
C90:
0.000
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
AAE1-2

UniProt

c.205T>A p.Ser69Thr missense variant moderate contig81 209167

IGV: Start, Jump

T/A
NGS:
0.013
C90:
0.000
AAE1-2

UniProt

c.1061G>A p.Arg354Lys missense variant moderate contig81 210023

IGV: Start, Jump

G/A
NGS:
0.000
C90:
0.000
AAE1-2

UniProt

c.1102C>A p.His368Asn missense variant moderate contig81 210064

IGV: Start, Jump

C/A
NGS:
0.033
C90:
0.000
AAE1-2

UniProt

c.1115A>G p.Glu372Gly missense variant moderate contig81 210077

IGV: Start, Jump

A/G
NGS:
0.004
C90:
0.000
PHL-1

UniProt

c.2623A>G p.Thr875Ala missense variant moderate contig1439 1487174

IGV: Start, Jump

T/C
NGS:
0.123
C90:
0.000
PHL-1

UniProt

c.2551A>G p.Thr851Ala missense variant moderate contig1439 1487246

IGV: Start, Jump

T/C
NGS:
0.116
C90:
0.890
HDS-1

UniProt

c.136G>A p.Val46Ile missense variant moderate contig1891 889256

IGV: Start, Jump

C/T
NGS:
0.088
C90:
0.593
HDS-1

UniProt

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

IGV: Start, Jump

G/C
NGS:
0.125
C90:
0.943
HDS-1

UniProt

c.19C>G p.Pro7Ala missense variant moderate contig1891 889373

IGV: Start, Jump

G/C
NGS:
0.000
C90:
0.000
PIE1-2

UniProt

c.5884G>A p.Gly1962Ser missense variant moderate contig1460 1185715

IGV: Start, Jump

C/T
NGS:
0.004
C90:
0.019
PIE1-2

UniProt

c.932C>T p.Ser311Leu missense variant moderate contig1460 1192466

IGV: Start, Jump

G/A
NGS:
0.000
C90:
0.000
EMF1-1

UniProt

c.62C>G p.Thr21Ser missense variant moderate contig883 268910

IGV: Start, Jump

C/G
NGS:
0.007
C90:
0.000
EMF1-1

UniProt

c.476A>T p.Asn159Ile missense variant moderate contig883 269965

IGV: Start, Jump

A/T
NGS:
0.007
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
FLD

UniProt

c.2869C>T p.His957Tyr missense variant moderate contig1450 2044163

IGV: Start, Jump

G/A
NGS:
0.011
C90:
0.000
FLD

UniProt

c.2831A>G p.Glu944Gly missense variant moderate contig1450 2044201

IGV: Start, Jump

T/C
NGS:
0.011
C90:
0.000
AAE1-3

UniProt

c.382T>C p.Tyr128His missense variant moderate contig976 1083643

IGV: Start, Jump

A/G
NGS:
0.072
C90:
0.000
AAE1-3

UniProt

c.367C>T p.Arg123Trp missense variant moderate contig976 1083658

IGV: Start, Jump

G/A
NGS:
0.007
C90:
0.000
AAE1-3

UniProt

c.293A>G p.Asp98Gly missense variant moderate contig976 1083732

IGV: Start, Jump

T/C
NGS:
0.068
C90:
0.000
AAE1-3

UniProt

c.284A>T p.Glu95Val missense variant moderate contig976 1083741

IGV: Start, Jump

T/A
NGS:
0.053
C90:
0.000
GGR

UniProt

c.704A>T p.His235Leu missense variant moderate contig2282 549696

IGV: Start, Jump

A/T
NGS:
0.121
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.042 0.083 0.125 0.167
clone distance sibling distance more distant
  1. 0.107 Liberty Haze (RSP11000)
  2. 0.117 Serious Happiness (RSP10763)
  3. 0.123 B52 (SRR14708255)
  4. 0.123 AOAC MI 545 (RSP11756)
  5. 0.129 AOAC MI 569 (RSP11759)
  6. 0.130 AOAC MI 567 (RSP11758)
  7. 0.132 AOAC MI 533 (RSP11753)
  8. 0.133 AOAC MI 542 (RSP11755)
  9. 0.136 Miss X (RSP10999)
  10. 0.136 AOAC MI 508 (RSP11750)
  11. 0.139 AOAC MI 599 (RSP11762)
  12. 0.140 AOAC MI 548 (RSP11757)
  13. 0.140 R1in136 (SRR14708237)
  14. 0.141 AOAC MI 535 (RSP11754)
  15. 0.141 AOAC MI 501 (RSP11748)
  16. 0.142 Rest (RSP11377)
  17. 0.142 Lift (RSP11378)
  18. 0.143 AOAC MI 588 (RSP11760)
  19. 0.147 Liberty Haze (RSP10946)
  20. 0.148 AOAC MI 504 (RSP11749)

Nearest genetic relatives (Base Tree)

0 0.075 0.150 0.225 0.300
clone distance sibling distance more distant
  1. 0.135 Liberty Haze (RSP11000)
  2. 0.194 Hermaphrodite ResearchSample2 (RSP11050)
  3. 0.213 KYRG-11 (RSP11051)
  4. 0.244 UP Sunrise (RSP10989)
  5. 0.245 Blueberry Cheesecake (RSP10684)
  6. 0.245 QUEEN JESUS (RSP10105)
  7. 0.255 Hermaphrodite Research Sample1 (RSP11049)
  8. 0.256 Kyrgyz Gold (RSP11054)
  9. 0.260 Italian Kiss (RSP11034)
  10. 0.263 Tisza (RSP11044)
  11. 0.264 Jiangji (RSP10653)
  12. 0.268 RKM-2018-003 (RSP11094)
  13. 0.271 USO 31 (RSP10981)
  14. 0.273 RKM-2018-020 (RSP11112)
  15. 0.274 Monoica (RSP10241)
  16. 0.276 RKM-2018-019 (RSP11111)
  17. 0.277 Blueberry Cheesecake (RSP10672)
  18. 0.278 Kimbo Slice (RSP10997)
  19. 0.280 RKM-2018-023 (RSP11115)
  20. 0.282 Pie Hoe (RSP11073)

Most genetically distant strains (All Samples)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.415 80E (RSP11213)
  2. 0.411 JL yellow (RSP11075)
  3. 0.377 80E (RSP11211)
  4. 0.375 JL 4th Gen 5 (RSP11199)
  5. 0.371 JL 3rd Gen Mother (RSP11197)
  6. 0.367 Feral (RSP11205)
  7. 0.364 Cherry Blossom (RSP11323)
  8. 0.359 JL 4th Gen 4 (RSP11198)
  9. 0.355 IUP3 (SRR14708256)
  10. 0.353 80E (RSP11212)
  11. 0.350 JL 4th Gen 3 (RSP11195)
  12. 0.345 CS (RSP11208)
  13. 0.345 Grape Stomper (RSP11180)
  14. 0.341 Cherry Blossom (RSP11301)
  15. 0.341 Northern Lights (RSP11501)
  16. 0.339 Wife (RSP11148)
  17. 0.338 Feral (RSP10890)
  18. 0.336 Purple Strawberry AK47 1 1 (RSP11415)
  19. 0.336 Tanao Sri 46 (RSP11486)
  20. 0.336 JL 3rd Gen Mother (RSP11214)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.426 JL yellow (RSP11075)
  2. 0.353 Skywalker OG (RSP10837)
  3. 0.348 RKM-2018-006 (RSP11097)
  4. 0.345 Ivory (RSP10668)
  5. 0.345 Black Beauty (RSP11035)
  6. 0.339 Carmagnola (RSP10979)
  7. 0.338 Skunk 18 (RSP11038)
  8. 0.335 Feral (RSP10890)
  9. 0.327 Fedora 17 (RSP10661)
  10. 0.323 Kush Hemp E1 (RSP11128)
  11. 0.323 Tygra (RSP10667)
  12. 0.323 Sour Raspberry (RSP10551)
  13. 0.322 RKM-2018-018 (RSP11110)
  14. 0.321 RKM-2018-026 (RSP11118)
  15. 0.315 RKM-2018-028 (RSP11120)
  16. 0.313 Blueberry Cheesecake (RSP10680)
  17. 0.313 RKM-2018-005 (RSP11096)
  18. 0.311 Cbot-2019-001 (RSP11129)
  19. 0.310 The Gift (RSP10988)
  20. 0.308 Cbot-2019-005 (RSP11133)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8346565
Overlapping SNPs:
9
Concordance:
7

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495158
Overlapping SNPs:
5
Concordance:
5
QR code for SRR14708204

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