Juso14

SRR 14708259

Grower: Lanzhou University, Guangpeng Ren

General Information

Sample Name
UJO
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 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: 1.46%
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: 0.0238
male female SRR14708259

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)

CBDAS c.587A>G p.Asn196Ser missense variant moderate contig1772 2082813

IGV: Start, Jump

A/G
NGS:
0.011
C90:
0.435
CBDAS c.1628G>A p.Arg543His missense variant moderate contig1772 2083854

IGV: Start, Jump

G/A
NGS:
0.033
C90:
0.000

Variants (Select Genes of Interest)

EMF1-2

UniProt

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

IGV: Start, Jump

A/C
NGS:
0.090
C90:
0.474
PHL-2 c.61G>A p.Val21Ile missense variant moderate contig2621 337630

IGV: Start, Jump

G/A
NGS:
0.002
C90:
0.000
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.431T>G p.Val144Gly missense variant moderate contig700 2721242

IGV: Start, Jump

A/C
NGS:
0.575
C90:
0.679
aPT1

UniProt

c.95_97delGTT p.Cys32del disruptive inframe deletion moderate contig121 2835800

IGV: Start, Jump

ATGT/A
NGS:
0.118
C90:
0.311
OAC-1

UniProt

c.260C>G p.Ser87Cys missense variant moderate contig931 118104

IGV: Start, Jump

G/C
NGS:
0.053
C90:
0.000
HDS-2

UniProt

c.679G>C p.Gly227Arg missense variant moderate contig95 1990632

IGV: Start, Jump

G/C
NGS:
0.037
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.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
Edestin

UniProt

c.40G>A p.Ala14Thr missense variant moderate contig850 3065250

IGV: Start, Jump

C/T
NGS:
0.011
C90:
0.000
Edestin

UniProt

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

IGV: Start, Jump

A/G
NGS:
0.059
C90:
0.000
EMF2

UniProt

c.1205C>T p.Ala402Val missense variant & splice region variant moderate contig954 3055694

IGV: Start, Jump

C/T
NGS:
0.015
C90:
0.053
EMF2

UniProt

c.1228A>G p.Ser410Gly missense variant moderate contig954 3055717

IGV: Start, Jump

A/G
NGS:
0.015
C90:
0.000
EMF2

UniProt

c.1772A>G p.Gln591Arg missense variant moderate contig954 3059929

IGV: Start, Jump

A/G
NGS:
0.092
C90:
0.876
EMF1-1

UniProt

c.242A>G p.Lys81Arg missense variant moderate contig883 269731

IGV: Start, Jump

A/G
NGS:
0.022
C90:
0.053
aPT4

UniProt

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

IGV: Start, Jump

T/C
NGS:
0.439
C90:
0.000
aPT4

UniProt

c.153A>C p.Lys51Asn missense variant moderate contig121 2828809

IGV: Start, Jump

A/C
NGS:
0.375
C90:
0.000
FLD

UniProt

c.2811_2813dupGGG p.Gly938dup disruptive inframe insertion & splice region variant moderate contig1450 2044218

IGV: Start, Jump

T/TCCC
NGS:
0.000
C90:
0.000
AAE1-3

UniProt

c.722G>A p.Arg241Lys missense variant moderate contig976 1083132

IGV: Start, Jump

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

UniProt

c.715G>A p.Val239Ile missense variant moderate contig976 1083139

IGV: Start, Jump

C/T
NGS:
0.002
C90:
0.000
GGR

UniProt

c.32C>A p.Thr11Lys missense variant moderate contig2282 549024

IGV: Start, Jump

C/A
NGS:
0.009
C90:
0.000
PKSB-3

UniProt

c.1848G>A p.Met616Ile missense variant moderate contig93 3339955

IGV: Start, Jump

G/A
NGS:
0.009
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.058 0.117 0.175 0.233
clone distance sibling distance more distant
  1. 0.145 R1in136 (SRR14708237)
  2. 0.174 R1in136 (SRR14708227)
  3. 0.178 Durban Poison 1 (RSP11013)
  4. 0.187 R1in136 (SRR14708225)
  5. 0.195 Santhica 27 (RSP10665)
  6. 0.197 Blue Dream (RSP11017)
  7. 0.197 JL 4th Gen 7 (RSP11153)
  8. 0.197 Santhica 27 (SRR14708211)
  9. 0.202 Tygra (RSP10667)
  10. 0.203 USO31 (RSP10233)
  11. 0.204 Liberty Haze (RSP11000)
  12. 0.204 B52 (SRR14708255)
  13. 0.208 Futura 75 (RSP10664)
  14. 0.209 R2in135 (SRR14708221)
  15. 0.210 VIR 449, Szegedi 9 (SRR14708213)
  16. 0.211 Beniko (SRR14708275)
  17. 0.214 Santhica27 (RSP10056)
  18. 0.214 AOAC MI 542 (RSP11755)
  19. 0.215 VIR 223, Bernburgskaya Odnodomnaya, bm (SRR14708217)
  20. 0.216 R1in136 (SRR14708226)

Nearest genetic relatives (Base Tree)

0 0.075 0.150 0.225 0.300
clone distance sibling distance more distant
  1. 0.190 Liberty Haze (RSP11000)
  2. 0.213 Tygra (RSP10667)
  3. 0.217 Futura 75 (RSP10664)
  4. 0.219 Tisza (RSP10659)
  5. 0.233 Monoica (RSP10241)
  6. 0.233 UP Sunrise (RSP10989)
  7. 0.238 Lovrin (RSP10658)
  8. 0.239 Hermaphrodite ResearchSample2 (RSP11050)
  9. 0.242 Santhica27 (RSP11047)
  10. 0.250 RKM-2018-005 (RSP11096)
  11. 0.255 RKM-2018-031 (RSP11123)
  12. 0.257 Fedora 17 (RSP10661)
  13. 0.257 USO 31 (RSP10981)
  14. 0.259 RKM-2018-028 (RSP11120)
  15. 0.262 Kimbo Slice (RSP10997)
  16. 0.263 Ivory (RSP10668)
  17. 0.265 Jiangji (RSP10653)
  18. 0.275 Blueberry Cheesecake (RSP10684)
  19. 0.284 Durban Poison (RSP11014)
  20. 0.286 RKM-2018-029 (RSP11121)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.441 80E (RSP11213)
  2. 0.430 Chematonic Cannatonic x Chemdawg (RSP11394)
  3. 0.421 80E (RSP11212)
  4. 0.415 JL 4th Gen 6 (RSP11200)
  5. 0.410 Northern Lights (RSP11501)
  6. 0.405 JL 2 (RSP11076)
  7. 0.400 JL 3rd Gen Father (RSP11196)
  8. 0.400 Cbot-2019-003 (RSP11131)
  9. 0.399 JL yellow (RSP11075)
  10. 0.399 PCL2 (SRR14708245)
  11. 0.399 80E (RSP11211)
  12. 0.393 Danny Noonan (RSP11070)
  13. 0.392 Super Sour Diesel (RSP11191)
  14. 0.391 Tanao Sri 46 (RSP11486)
  15. 0.391 RKM-2018-002 (RSP11093)
  16. 0.390 Sour Tsunami (RSP11187)
  17. 0.389 White Label 1 (RSP11336)
  18. 0.388 Tiger Tail 30 (RSP11484)
  19. 0.385 Squirrel Tail 31 (RSP11485)
  20. 0.385 501st OG (RSP11241)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.414 JL yellow (RSP11075)
  2. 0.400 Cbot-2019-005 (RSP11133)
  3. 0.386 Sour Raspberry (RSP10551)
  4. 0.375 Carmagnola (RSP10979)
  5. 0.373 Blueberry Cheesecake (RSP10672)
  6. 0.373 CST (RSP11002)
  7. 0.367 RKM-2018-003 (RSP11094)
  8. 0.362 RKM-2018-002 (RSP11093)
  9. 0.362 Cbot-2019-004 (RSP11132)
  10. 0.350 Blue Dream (RSP11033)
  11. 0.345 RKM-2018-022 (RSP11114)
  12. 0.345 Feral (RSP10890)
  13. 0.338 RKM-2018-009 (RSP11100)
  14. 0.337 Kush Hemp E1 (RSP11128)
  15. 0.333 RKM-2018-006 (RSP11097)
  16. 0.333 Black Beauty (RSP11035)
  17. 0.333 Blueberry Cheesecake (RSP10680)
  18. 0.333 QUEEN JESUS (RSP10105)
  19. 0.332 Cherry (RSP11142)
  20. 0.330 RKM-2018-033 (RSP11125)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4451089
Overlapping SNPs:
11
Concordance:
10

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495237
Overlapping SNPs:
4
Concordance:
4
QR code for SRR14708259

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