XHC1

SRR 14708212

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: 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 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: 1.85%
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: 0.0193
male female SRR14708212

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
GPPs1

UniProt

c.472T>A p.Leu158Met missense variant moderate contig676 168721

IGV: Start, Jump

T/A
NGS:
0.020
C90:
0.000
GPPs1

UniProt

c.807_814delGCATTTTT p.His270fs frameshift variant high contig676 169595

IGV: Start, Jump

GTGCATTTT/G
NGS:
0.015
C90:
0.000
GPPs1

UniProt

c.896A>G p.Asn299Ser missense variant moderate contig676 169772

IGV: Start, Jump

A/G
NGS:
0.046
C90:
0.000
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.1409G>A p.Arg470Lys missense variant moderate contig885 2295

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
EMF1-2

UniProt

c.2008C>T p.Pro670Ser missense variant moderate contig885 2894

IGV: Start, Jump

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

UniProt

c.2256A>T p.Lys752Asn missense variant moderate contig885 3142

IGV: Start, Jump

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

UniProt

c.2653A>G p.Thr885Ala missense variant moderate contig885 3539

IGV: Start, Jump

A/G
NGS:
0.007
C90:
0.000
PHL-2 c.2756A>C p.Glu919Ala missense variant moderate contig2621 342799

IGV: Start, Jump

A/C
NGS:
0.064
C90:
0.675
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.3027G>T p.Lys1009Asn missense variant moderate contig2621 343070

IGV: Start, Jump

G/T
NGS:
0.055
C90:
0.311
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.324A>C p.Glu108Asp missense variant moderate contig700 2721349

IGV: Start, Jump

T/G
NGS:
0.094
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.1580A>G p.Asn527Ser missense variant moderate contig606 3242691

IGV: Start, Jump

T/C
NGS:
0.004
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
DXR-2

UniProt

c.431C>G p.Ala144Gly missense variant moderate contig380 287760

IGV: Start, Jump

G/C
NGS:
0.182
C90:
0.550
ELF4

UniProt

c.144T>A p.Asp48Glu missense variant moderate contig869 622426

IGV: Start, Jump

A/T
NGS:
0.031
C90:
0.000
ELF3

UniProt

c.772A>G p.Ser258Gly missense variant moderate contig97 242478

IGV: Start, Jump

A/G
NGS:
0.112
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
ELF5

UniProt

c.520A>G p.Thr174Ala missense variant moderate contig382 880382

IGV: Start, Jump

A/G
NGS:
0.015
C90:
0.048
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.1006A>G p.Lys336Glu missense variant moderate contig81 209968

IGV: Start, Jump

A/G
NGS:
0.116
C90:
0.000
AAE1-2

UniProt

c.1415G>A p.Ser472Asn missense variant moderate contig81 210377

IGV: Start, Jump

G/A
NGS:
0.070
C90:
0.000
AAE1-2

UniProt

c.1417A>G p.Thr473Ala missense variant moderate contig81 210379

IGV: Start, Jump

A/G
NGS:
0.070
C90:
0.000
AAE1-2

UniProt

c.1434G>T p.Glu478Asp missense variant moderate contig81 210396

IGV: Start, Jump

G/T
NGS:
0.075
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
Edestin

UniProt

c.16T>C p.Ser6Pro missense variant moderate contig850 3065274

IGV: Start, Jump

A/G
NGS:
0.059
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
HDS-1

UniProt

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

IGV: Start, Jump

C/T
NGS:
0.167
C90:
0.000
PIE1-2

UniProt

c.6780T>A p.Asp2260Glu missense variant moderate contig1460 1184307

IGV: Start, Jump

A/T
NGS:
0.000
C90:
0.000
PIE1-2

UniProt

c.5932A>G p.Ile1978Val missense variant moderate contig1460 1185552

IGV: Start, Jump

T/C
NGS:
0.061
C90:
0.268
PIE1-2

UniProt

c.580A>G p.Thr194Ala missense variant moderate contig1460 1194478

IGV: Start, Jump

T/C
NGS:
0.002
C90:
0.000
EMF2

UniProt

c.722C>T p.Thr241Ile missense variant moderate contig954 3050302

IGV: Start, Jump

C/T
NGS:
0.018
C90:
0.062
EMF1-1

UniProt

c.389G>A p.Arg130Gln missense variant moderate contig883 269878

IGV: Start, Jump

G/A
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
aPT4

UniProt

c.97T>C p.Tyr33His missense variant moderate contig121 2828753

IGV: Start, Jump

T/C
NGS:
0.439
C90:
0.000
AAE1-3

UniProt

c.416T>C p.Leu139Pro missense variant moderate contig976 1083609

IGV: Start, Jump

A/G
NGS:
0.061
C90:
0.000
AAE1-3

UniProt

c.403G>T p.Asp135Tyr missense variant moderate contig976 1083622

IGV: Start, Jump

C/A
NGS:
0.007
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.296C>T p.Pro99Leu missense variant moderate contig976 1083729

IGV: Start, Jump

G/A
NGS:
0.046
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
AAE1-3

UniProt

c.267T>G p.His89Gln missense variant moderate contig976 1083758

IGV: Start, Jump

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

UniProt

c.167A>G p.Glu56Gly missense variant moderate contig976 1083908

IGV: Start, Jump

T/C
NGS:
0.070
C90:
0.000
AAE1-3

UniProt

c.154G>A p.Val52Ile missense variant moderate contig976 1083921

IGV: Start, Jump

C/T
NGS:
0.007
C90:
0.000
AAE1-3

UniProt

c.125A>G p.Glu42Gly missense variant moderate contig976 1083950

IGV: Start, Jump

T/C
NGS:
0.064
C90:
0.000
AAE1-3

UniProt

c.101A>G p.Tyr34Cys missense variant moderate contig976 1083974

IGV: Start, Jump

T/C
NGS:
0.007
C90:
0.000
AAE1-3

UniProt

c.79A>G p.Thr27Ala missense variant moderate contig976 1083996

IGV: Start, Jump

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

UniProt

c.52G>A p.Gly18Ser missense variant moderate contig976 1084023

IGV: Start, Jump

C/T
NGS:
0.064
C90:
0.000
AAE1-3

UniProt

c.12G>A p.Met4Ile missense variant moderate contig976 1084063

IGV: Start, Jump

C/T
NGS:
0.007
C90:
0.000
AAE1-3

UniProt

c.11T>C p.Met4Thr missense variant moderate contig976 1084064

IGV: Start, Jump

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

UniProt

c.3G>A p.Met1? start lost high contig976 1084072

IGV: Start, Jump

C/T
NGS:
0.046
C90:
0.416
PIE1-1

UniProt

c.1222C>G p.Gln408Glu missense variant moderate contig1225 2281482

IGV: Start, Jump

C/G
NGS:
0.096
C90:
0.852
GGR

UniProt

c.376G>C p.Glu126Gln missense variant moderate contig2282 549368

IGV: Start, Jump

G/C
NGS:
0.015
C90:
0.110
GGR

UniProt

c.382C>T p.Leu128Phe missense variant moderate contig2282 549374

IGV: Start, Jump

C/T
NGS:
0.024
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.050 0.100 0.150 0.200
clone distance sibling distance more distant
  1. 0.147 Super Blue Dream (RSP11011)
  2. 0.150 B52 (SRR14708255)
  3. 0.156 Lift (RSP11378)
  4. 0.156 AOAC MI 567 (RSP11758)
  5. 0.157 AOAC MI 597 (RSP11761)
  6. 0.157 AOAC MI 599 (RSP11762)
  7. 0.159 AOAC MI 504 (RSP11749)
  8. 0.159 XHC2 (SRR14708210)
  9. 0.165 AOAC MI 533 (RSP11753)
  10. 0.167 Electra (RSP11366)
  11. 0.169 AOAC MI 501 (RSP11748)
  12. 0.169 AOAC MI 588 (RSP11760)
  13. 0.169 AOAC MI 542 (RSP11755)
  14. 0.172 AOAC MI 548 (RSP11757)
  15. 0.172 AOAC MI 569 (RSP11759)
  16. 0.173 JL 4th Gen 7 (RSP11153)
  17. 0.173 Rest (RSP11377)
  18. 0.173 AOAC MI 535 (RSP11754)
  19. 0.173 Serious Happiness (RSP10763)
  20. 0.174 Blue Dream (RSP11007)

Nearest genetic relatives (Base Tree)

0 0.075 0.150 0.225 0.300
clone distance sibling distance more distant
  1. 0.184 UP Sunrise (RSP10989)
  2. 0.188 Tisza (RSP10659)
  3. 0.190 KYRG-11 (RSP11051)
  4. 0.194 Liberty Haze (RSP11000)
  5. 0.225 Kyrgyz Gold (RSP11054)
  6. 0.230 Tygra (RSP10667)
  7. 0.239 Recon (RSP10755)
  8. 0.244 Feral (RSP10890)
  9. 0.252 Hermaphrodite Research Sample1 (RSP11049)
  10. 0.254 CST (RSP11002)
  11. 0.257 RKM-2018-009 (RSP11100)
  12. 0.262 Futura 75 (RSP10664)
  13. 0.262 Santhica27 (RSP11047)
  14. 0.262 Golden Goat 2 (RSP10991)
  15. 0.267 RKM-2018-027 (RSP11119)
  16. 0.267 RKM-2018-029 (RSP11121)
  17. 0.267 Tisza (RSP11044)
  18. 0.269 Ivory (RSP10668)
  19. 0.270 RKM-2018-019 (RSP11111)
  20. 0.271 Gold Cracker (RSP11048)

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. 0.410 Danny Noonan (RSP11070)
  3. 0.401 Cbot-2019-005 (RSP11133)
  4. 0.400 Red Eye OG (RSP11190)
  5. 0.393 Cherry Blossom (RSP11323)
  6. 0.384 JL 2 (RSP11076)
  7. 0.381 Star Dawg (RSP11352)
  8. 0.377 JL yellow (RSP11075)
  9. 0.375 Cherry Blossom (RSP11309)
  10. 0.374 Black Beauty (RSP11175)
  11. 0.374 Skywalker OG (RSP10837)
  12. 0.373 Abacus (RSP11266)
  13. 0.372 Cherry Blossom (RSP11298)
  14. 0.370 Purple Strawberry AK47 1 1 (RSP11415)
  15. 0.367 Super Sour Diesel (RSP11191)
  16. 0.366 Cherry Blossom (RSP11334)
  17. 0.364 Cherry Blossom (RSP11328)
  18. 0.363 Unknown- Cherry Wine - 001 (RSP11268)
  19. 0.363 Tiborszallasie (RSP11210)
  20. 0.362 Cbot-2019-004 (RSP11132)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.410 Cbot-2019-005 (RSP11133)
  2. 0.383 Durban Poison (RSP11014)
  3. 0.375 Skywalker OG (RSP10837)
  4. 0.374 JL yellow (RSP11075)
  5. 0.363 RKM-2018-033 (RSP11125)
  6. 0.361 RKM-2018-002 (RSP11093)
  7. 0.356 Cbot-2019-004 (RSP11132)
  8. 0.355 QUEEN JESUS (RSP10105)
  9. 0.352 Black Beauty (RSP11035)
  10. 0.345 RKM-2018-026 (RSP11118)
  11. 0.344 RKM-2018-034 (RSP11126)
  12. 0.339 Carmagnola (RSP10979)
  13. 0.332 Monoica (RSP10241)
  14. 0.332 Carmagnola (RSP11037)
  15. 0.330 Kush Hemp E1 (RSP11128)
  16. 0.328 Sour Raspberry (RSP10551)
  17. 0.328 Blueberry Cheesecake (RSP10672)
  18. 0.323 RKM-2018-032 (RSP11124)
  19. 0.322 Cherry (RSP11143)
  20. 0.321 The Gift (RSP10988)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8346643
Overlapping SNPs:
12
Concordance:
10
QR code for SRR14708212

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