Advanced Strain Search

VIR 483

SRR 14708239

Grower: Lanzhou University, Guangpeng Ren

General Information

Sample Name
UTT2
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: Rare
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

File Downloads

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: 1.27%
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: 0.0212
male female SRR14708239

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.44G>A p.Arg15Lys missense variant moderate contig2621 337613

IGV: Start, Jump

G/A
NGS:
0.015
C90:
0.167
PHL-2 c.1837G>A p.Glu613Lys missense variant moderate contig2621 341115

IGV: Start, Jump

G/A
NGS:
0.009
C90:
0.000
PKSG-2a

UniProt

c.67T>A p.Phe23Ile missense variant moderate contig700 1945567

IGV: Start, Jump

A/T
NGS:
0.825
C90:
0.904
DXR-2

UniProt

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

IGV: Start, Jump

G/C
NGS:
0.182
C90:
0.550
ELF3

UniProt

c.574A>G p.Asn192Asp missense variant moderate contig97 242280

IGV: Start, Jump

A/G
NGS:
0.042
C90:
0.579
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
AAE1-2

UniProt

c.409C>T p.Arg137Cys missense variant moderate contig81 209371

IGV: Start, Jump

C/T
NGS:
0.009
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
HDS-1

UniProt

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

IGV: Start, Jump

G/C
NGS:
0.125
C90:
0.943
PIE1-2

UniProt

c.710C>T p.Pro237Leu missense variant moderate contig1460 1193804

IGV: Start, Jump

G/A
NGS:
0.072
C90:
0.866
PIE1-2

UniProt

c.706T>C p.Tyr236His missense variant moderate contig1460 1193808

IGV: Start, Jump

A/G
NGS:
0.059
C90:
0.737
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
FT

UniProt

c.194A>T p.His65Leu missense variant moderate contig1561 3124618

IGV: Start, Jump

A/T
NGS:
0.000
C90:
0.000
FT

UniProt

c.196A>G p.Ile66Val missense variant moderate contig1561 3124620

IGV: Start, Jump

A/G
NGS:
0.004
C90:
0.033
aPT4

UniProt

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

IGV: Start, Jump

A/C
NGS:
0.375
C90:
0.000
aPT4

UniProt

c.198A>C p.Lys66Asn missense variant moderate contig121 2828854

IGV: Start, Jump

A/C
NGS:
0.044
C90:
0.000
aPT4

UniProt

c.235_236delGT p.Val79fs frameshift variant high contig121 2829030

IGV: Start, Jump

ATG/A
NGS:
0.417
C90:
0.000
aPT4

UniProt

c.238delT p.Ser80fs frameshift variant high contig121 2829034

IGV: Start, Jump

AT/A
NGS:
0.421
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
GGR

UniProt

c.637G>A p.Ala213Thr missense variant moderate contig2282 549629

IGV: Start, Jump

G/A
NGS:
0.000
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.067 0.133 0.200 0.267
clone distance sibling distance more distant
  1. 0.186 VIR 483 (SRR14708240)
  2. 0.207 VIR 483 (SRR14708238)
  3. 0.220 Santhica27 (RSP11046)
  4. 0.225 Santhica27 (RSP11047)
  5. 0.225 Santhica 27 (RSP10665)
  6. 0.226 Santhica27 (RSP10056)
  7. 0.227 Carmagnola (RSP10982)
  8. 0.229 Futura 75 (RSP10664)
  9. 0.231 Carmagnola (RSP10976)
  10. 0.234 Carmagnola (RSP11039)
  11. 0.239 Fedora 17 (RSP10661)
  12. 0.239 Juso14 (SRR14708259)
  13. 0.239 Carmagnola (RSP10978)
  14. 0.240 VIR 469 (SRR14708242)
  15. 0.240 Carmagnola (RSP10979)
  16. 0.241 Carmagnola (RSP10980)
  17. 0.242 Bialobrzeskie (SRR14708244)
  18. 0.242 Carmagnola (RSP11037)
  19. 0.242 Tisza (RSP11044)
  20. 0.242 USO 31 (RSP10983)

Nearest genetic relatives (Base Tree)

0 0.083 0.167 0.250 0.333
clone distance sibling distance more distant
  1. 0.225 Fedora 17 (RSP10661)
  2. 0.228 Santhica27 (RSP11047)
  3. 0.229 Futura 75 (RSP10664)
  4. 0.231 Carmagnola (RSP10979)
  5. 0.237 Carmagnola (RSP11037)
  6. 0.243 Tisza (RSP11044)
  7. 0.245 Lovrin (RSP10658)
  8. 0.248 Tisza (RSP10659)
  9. 0.248 Ivory (RSP10668)
  10. 0.249 USO 31 (RSP10981)
  11. 0.256 Monoica (RSP10241)
  12. 0.260 Feral (RSP10890)
  13. 0.264 Tygra (RSP10667)
  14. 0.273 KYRG-11 (RSP11051)
  15. 0.280 Kyrgyz Gold (RSP11054)
  16. 0.310 Jiangji (RSP10653)
  17. 0.312 Liberty Haze (RSP11000)
  18. 0.321 Recon (RSP10755)
  19. 0.330 The Gift (RSP10988)
  20. 0.331 Cbot-2019-006 (RSP11134)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
clone distance sibling distance more distant
  1. 0.464 Cherry Blossom (RSP11301)
  2. 0.444 Cherry Blossom (RSP11298)
  3. 0.442 Cherry Blossom (RSP11323)
  4. 0.434 GMO x Garlic Breath (RSP12507)
  5. 0.431 Unknown--Cherry Wine---001- (RSP11268)
  6. 0.431 Chematonic -Cannatonic x Chemdawg- (RSP11394)
  7. 0.431 Cherry Blossom (RSP11300)
  8. 0.426 BagSeed (RSP12627)
  9. 0.425 Cherry Blossom (RSP11311)
  10. 0.425 Cherry Blossom (RSP11328)
  11. 0.423 AVIDEKEL 2 0 (RSP11174)
  12. 0.423 Cherry Blossom (RSP11309)
  13. 0.422 Queen Dream (RSP11278)
  14. 0.421 BagSeed (RSP12501)
  15. 0.420 Cherry Blossom (RSP11334)
  16. 0.419 JL 3rd Gen Mother (RSP11214)
  17. 0.419 Queen Dream CBG (RSP11284)
  18. 0.419 Cherry Blossom (RSP11331)
  19. 0.419 F Can 7 (RSP11448)
  20. 0.419 Cherry Blossom (RSP11312)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.411 JL yellow (RSP11075)
  2. 0.407 RKM-2018-002 (RSP11093)
  3. 0.401 RKM-2018-028 (RSP11120)
  4. 0.399 Cbot-2019-005 (RSP11133)
  5. 0.391 Skunk#18 (RSP11038)
  6. 0.388 RKM-2018-006 (RSP11097)
  7. 0.387 Kush Hemp E1 (RSP11128)
  8. 0.381 RKM-2018-004 (RSP11096)
  9. 0.381 Cbot-2019-001 (RSP11129)
  10. 0.379 Hermaphrodite Research Sample1 (RSP11049)
  11. 0.379 Skywalker OG (RSP10837)
  12. 0.379 RKM-2018-032 (RSP11124)
  13. 0.378 RKM-2018-018 (RSP11110)
  14. 0.377 RKM-2018-022 (RSP11114)
  15. 0.376 Cbot-2019-004 (RSP11132)
  16. 0.375 RKM-2018-009 (RSP11100)
  17. 0.372 RKM-2018-023 (RSP11115)
  18. 0.370 RKM-2018-026 (RSP11118)
  19. 0.367 Italian Kiss (RSP11034)
  20. 0.367 RKM-2018-027 (RSP11119)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8346604
Overlapping SNPs:
5
Concordance:
5

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495167
Overlapping SNPs:
2
Concordance:
2
QR code for SRR14708239

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