R3in134
SRR 14708220
General Information
- Sample Name
- NEB2
- Accession Date
- May 31, 2021
- Reported Plant Sex
- not reported
- Report Type
- Whole-Genome Sequencing
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.
Chemical Information
Cannabinoid and terpenoid information provided by the grower.
Cannabinoids
No information provided.
Terpenoids
No information provided.
Genetic Information
- Plant Type
- Unknown
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.
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.

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).



This chart represents the Illumina sequence coverage over the CBCA synthase gene.

Variants (THCAS, CBDAS, and CBCAS)
Variants (Select Genes of Interest)
GPPs1 |
c.845_848del |
p.Glu282fs | frameshift variant | high | contig676 | 169629 | TGAAA/T |
|
GPPs1 | c.896A>G | p.Asn299Ser | missense variant | moderate | contig676 | 169772 | A/G |
|
GPPs1 |
c.923_927+2d |
p.Val308fs | frameshift variant & splice donor variant & splice region variant & intron variant | high | contig676 | 169798 | GTTTTGGT/G |
|
PHL-2 | c.280T>C | p.Phe94Leu | missense variant | moderate | contig2621 | 338845 | T/C |
|
PHL-2 | c.722G>A | p.Gly241Glu | missense variant | moderate | contig2621 | 339860 | G/A |
|
PHL-2 | c.2783G>A | p.Ser928Asn | missense variant | moderate | contig2621 | 342826 | G/A | |
PHL-2 | c.3494C>G | p.Ser1165Trp | missense variant | moderate | contig2621 | 343537 | C/G |
|
PKSG-4b |
c.535_545del |
p.Ile179fs | frameshift variant | high | contig700 | 2721127 |
CCCCACTCCAAT |
|
PKSG-4b | c.526T>C | p.Trp176Arg | missense variant | moderate | contig700 | 2721147 | A/G |
|
PKSG-4b | c.496A>G | p.Lys166Glu | missense variant | moderate | contig700 | 2721177 | T/C | |
PKSG-4b |
c.352_355del |
p.Thr118fs | frameshift variant | high | contig700 | 2721317 | CCTGT/C |
|
PKSG-4b | c.323A>G | p.Glu108Gly | missense variant | moderate | contig700 | 2721350 | T/C |
|
PKSG-4a |
c.1191_1193d |
p.Tyr398del | disruptive inframe deletion | moderate | contig700 | 1938600 | AATT/A |
|
FAD2-2 | c.75C>A | p.His25Gln | missense variant | moderate | contig83 | 1803294 | G/T |
|
FAD2-2 | c.58C>T | p.His20Tyr | missense variant | moderate | contig83 | 1803311 | G/A |
|
ELF3 | c.574A>G | p.Asn192Asp | missense variant | moderate | contig97 | 242280 | A/G | |
ELF3 | c.812G>C | p.Gly271Ala | missense variant | moderate | contig97 | 242518 | G/C | |
ELF3 | c.1466G>A | p.Ser489Asn | missense variant | moderate | contig97 | 244297 | G/A |
|
aPT1 | c.406A>G | p.Ile136Val | missense variant | moderate | contig121 | 2839605 | A/G | |
aPT1 | c.727G>T | p.Glu243* | stop gained | high | contig121 | 2841362 | G/T | |
OAC-1 | c.260C>G | p.Ser87Cys | missense variant | moderate | contig931 | 118104 | G/C |
|
AAE1-2 | c.232A>G | p.Asn78Asp | missense variant | moderate | contig81 | 209194 | A/G |
|
AAE1-2 |
c.285_290dup |
p.Ser96_Ser9 |
disruptive inframe insertion | moderate | contig81 | 209243 | A/AATCCTC |
|
AAE1-2 | c.374A>G | p.His125Arg | missense variant | moderate | contig81 | 209336 | A/G |
|
AAE1-2 | c.704A>G | p.His235Arg | missense variant | moderate | contig81 | 209666 | A/G |
|
AAE1-2 |
c.948_949ins |
p.Asp317fs | frameshift variant | high | contig81 | 209910 | C/CA |
|
AAE1-2 | c.952delC | p.Gln318fs | frameshift variant | high | contig81 | 209912 | AC/A |
|
AAE1-2 | c.953A>G | p.Gln318Arg | missense variant | moderate | contig81 | 209915 | A/G |
|
AAE1-2 | c.955C>T | p.Arg319Cys | missense variant | moderate | contig81 | 209917 | C/T |
|
AAE1-2 | c.1006A>G | p.Lys336Glu | missense variant | moderate | contig81 | 209968 | A/G |
|
AAE1-2 | c.1102C>A | p.His368Asn | missense variant | moderate | contig81 | 210064 | C/A |
|
AAE1-2 | c.1415G>A | p.Ser472Asn | missense variant | moderate | contig81 | 210377 | G/A |
|
AAE1-2 | c.1417A>G | p.Thr473Ala | missense variant | moderate | contig81 | 210379 | A/G |
|
AAE1-2 | c.1434G>T | p.Glu478Asp | missense variant | moderate | contig81 | 210396 | G/T |
|
PHL-1 | c.2623A>G | p.Thr875Ala | missense variant | moderate | contig1439 | 1487174 | T/C |
|
PHL-1 | c.2551A>G | p.Thr851Ala | missense variant | moderate | contig1439 | 1487246 | T/C | |
TFL1 | c.421A>G | p.Ser141Gly | missense variant | moderate | contig1636 | 520496 | T/C |
|
HDS-1 | c.1618A>G | p.Ile540Val | missense variant | moderate | contig1891 | 885936 | T/C | |
HDS-1 | c.1378G>A | p.Val460Ile | missense variant | moderate | contig1891 | 886370 | C/T |
|
HDS-1 |
c.-108+1_-10 |
splice donor variant & intron variant | high | contig1891 | 889975 | A/AC |
|
|
PIE1-2 | c.5932A>G | p.Ile1978Val | missense variant | moderate | contig1460 | 1185552 | T/C | |
PIE1-2 |
c.2083_2085d |
p.Val695del | conservative inframe deletion | moderate | contig1460 | 1189954 | GGAC/G | |
EMF2 | c.1241C>T | p.Ala414Val | missense variant | moderate | contig954 | 3055730 | C/T |
|
aPT4 | c.80A>G | p.Lys27Arg | missense variant | moderate | contig121 | 2828736 | A/G |
|
aPT4 | c.202T>A | p.Leu68Ile | missense variant | moderate | contig121 | 2828858 | T/A |
|
aPT4 | c.238delT | p.Ser80fs | frameshift variant | high | contig121 | 2829034 | AT/A |
|
FLD | c.2869C>T | p.His957Tyr | missense variant | moderate | contig1450 | 2044163 | G/A |
|
FLD | c.2831A>G | p.Glu944Gly | missense variant | moderate | contig1450 | 2044201 | T/C |
|
FLD | c.2069G>A | p.Arg690Gln | missense variant | moderate | contig1450 | 2045671 | C/T |
|
AAE1-3 | c.260T>C | p.Val87Ala | missense variant | moderate | contig976 | 1083765 | A/G |
|
AAE1-3 | c.125A>G | p.Glu42Gly | missense variant | moderate | contig976 | 1083950 | T/C |
|
AAE1-3 | c.79A>G | p.Thr27Ala | missense variant | moderate | contig976 | 1083996 | T/C |
|
AAE1-3 | c.52G>A | p.Gly18Ser | missense variant | moderate | contig976 | 1084023 | C/T |
|
GGR | c.581C>T | p.Ala194Val | missense variant | moderate | contig2282 | 549573 | C/T | |
GGR | c.704A>T | p.His235Leu | missense variant | moderate | contig2282 | 549696 | A/T |
|
Nearest genetic relatives (All Samples)
- 0.176 R3in134 (SRR14708219)
- 0.177 Durban Poison 1 (RSP11013)
- 0.189 Serious Happiness (RSP10763)
- 0.196 QHI (SRR14708202)
- 0.196 KYRG-11 (RSP11051)
- 0.204 B52 (SRR14708255)
- 0.211 R2in135 (SRR14708236)
- 0.214 R3in134 (SRR14708235)
- 0.216 Liberty Haze (RSP11000)
- 0.216 Jiangji (RSP10653)
- 0.217 Wedding Pie (RSP11745)
- 0.225 UnObtanium (RSP11611)
- 0.226 XHC2 (SRR14708210)
- 0.227 XUM2 (SRR14708204)
- 0.231 Blueberry Cheesecake (RSP10684)
- 0.231 AOAC MI 504 (RSP11749)
- 0.231 AOAC MI 508 (RSP11750)
- 0.233 RKM-2018-013 (RSP11104)
- 0.235 AOAC MI 567 (RSP11758)
- 0.236 AOAC MI 588 (RSP11760)
Nearest genetic relatives (Base Tree)
- 0.202 KYRG-11 (RSP11051)
- 0.209 Liberty Haze (RSP11000)
- 0.210 Jiangji (RSP10653)
- 0.239 Blueberry Cheesecake (RSP10684)
- 0.244 UP Sunrise (RSP10989)
- 0.250 Hermaphrodite ResearchSample2 (RSP11050)
- 0.265 Durban Poison (RSP11014)
- 0.270 RKM-2018-020 (RSP11112)
- 0.276 Gold Cracker (RSP11048)
- 0.278 Tygra (RSP10667)
- 0.279 USO 31 (RSP10981)
- 0.282 Pie Hoe (RSP11073)
- 0.284 RKM-2018-022 (RSP11114)
- 0.288 RKM-2018-005 (RSP11096)
- 0.289 Kyrgyz Gold (RSP11054)
- 0.291 RKM-2018-034 (RSP11126)
- 0.294 RKM-2018-033 (RSP11125)
- 0.295 RKM-2018-026 (RSP11118)
- 0.299 Golden Goat 2 (RSP10991)
- 0.301 RKM-2018-032 (RSP11124)
Most genetically distant strains (All Samples)
- 0.454 Chematonic Cannatonic x Chemdawg (RSP11394)
- 0.445 JL 2 (RSP11076)
- 0.444 Tiborszallasie (RSP11210)
- 0.441 JL yellow (RSP11075)
- 0.439 JL 4th Gen 3 (RSP11195)
- 0.431 Wife (RSP11148)
- 0.429 JL 4th Gen 5 (RSP11199)
- 0.429 JL 3rd Gen Father (RSP11196)
- 0.429 Cherry Blossom (RSP11298)
- 0.428 Cherry Blossom (RSP11301)
- 0.427 Cherry Blossom (RSP11309)
- 0.427 JL 4th Gen 1 (RSP11193)
- 0.426 Unknown- Cherry Wine - 001 (RSP11268)
- 0.423 JL 4th Gen 4 (RSP11198)
- 0.422 Unknown- Cherry Wine - 003 (RSP11270)
- 0.420 Blueberry Cheesecake (RSP10670)
- 0.420 JL 3rd Gen Mother (RSP11214)
- 0.416 JL 4th Gen 6 (RSP11200)
- 0.412 IUP3 (SRR14708256)
- 0.411 Feral (RSP11205)
Most genetically distant strains (Base Tree)
- 0.439 JL yellow (RSP11075)
- 0.397 Cbot-2019-001 (RSP11129)
- 0.392 Feral (RSP10890)
- 0.381 Cherry (RSP11143)
- 0.379 Cbot-2019-005 (RSP11133)
- 0.378 Cbot-2019-004 (RSP11132)
- 0.378 Cherry (RSP11142)
- 0.377 Carmagnola (RSP10979)
- 0.374 Blueberry Cheesecake (RSP10672)
- 0.367 Ivory (RSP10668)
- 0.363 RKM-2018-006 (RSP11097)
- 0.362 Hermaphrodite Research Sample1 (RSP11049)
- 0.356 Fedora 17 (RSP10661)
- 0.356 Santhica27 (RSP11047)
- 0.355 The Gift (RSP10988)
- 0.351 Sour Raspberry (RSP10551)
- 0.351 Recon (RSP10755)
- 0.349 Black Beauty (RSP11035)
- 0.348 Monoica (RSP10241)
- 0.343 Italian Kiss (RSP11034)
Nearest genetic relative in Phylos dataset
- Overlapping SNPs:
- 12
- Concordance:
- 10
Nearest genetic relative in Lynch dataset
- Overlapping SNPs:
- 2
- Concordance:
- 2