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)
- 0.165 R3in134 (SRR14708219)
- 0.185 R3in134 (SRR14708235)
- 0.206 R3in134 (SRR14708218)
- 0.237 QHI (SRR14708202)
- 0.242 Jiangji (RSP10653)
- 0.245 R2in135 (SRR14708221)
- 0.246 R2in135 (SRR14708236)
- 0.246 Tisza (RSP11045)
- 0.248 Tisza (RSP11044)
- 0.250 R2in135 (SRR14708224)
- 0.250 KYRG-151 (RSP11052)
- 0.250 IMA (SRR14708203)
- 0.255 R4 (RSP11617)
- 0.255 R2in135 (SRR14708223)
- 0.256 KYRG-11 (RSP11051)
- 0.259 XHC2 (SRR14708210)
- 0.259 Santhica27 (RSP10056)
- 0.261 Tak-HN (RSP11618)
- 0.264 USO31 (RSP10233)
- 0.265 Carmagnola (SRR14708274)
Nearest genetic relatives (Base Tree)
- 0.253 Jiangji (RSP10653)
- 0.267 Lovrin (RSP10658)
- 0.268 Santhica27 (RSP11047)
- 0.269 Tisza (RSP11044)
- 0.272 Monoica (RSP10241)
- 0.274 Kyrgyz Gold (RSP11054)
- 0.274 Tygra (RSP10667)
- 0.275 Tisza (RSP10659)
- 0.277 USO 31 (RSP10981)
- 0.278 Fedora 17 (RSP10661)
- 0.283 Carmagnola (RSP10979)
- 0.284 KYRG-11 (RSP11051)
- 0.287 Futura 75 (RSP10664)
- 0.292 Ivory (RSP10668)
- 0.294 Carmagnola (RSP11037)
- 0.300 Feral (RSP10890)
- 0.315 Recon (RSP10755)
- 0.318 RKM-2018-029 (RSP11121)
- 0.329 Hermaphrodite ResearchSample2 (RSP11050)
- 0.335 Durban Poison (RSP11014)
Most genetically distant strains (All Samples)
- 0.494 Cherry Blossom (RSP11318)
- 0.486 Cherry Blossom (RSP11301)
- 0.483 Cherry Blossom (RSP11323)
- 0.465 Unknown--Cherry Wine---001- (RSP11268)
- 0.458 Cherry Blossom (RSP11331)
- 0.452 Cherry Blossom (RSP11312)
- 0.452 Cherry Blossom (RSP11328)
- 0.449 Cherry Blossom (RSP11325)
- 0.447 Cherry Blossom (RSP11300)
- 0.446 Cherry Blossom (RSP11322)
- 0.443 Queen Dream (RSP11278)
- 0.442 Cherry Blossom (RSP11306)
- 0.441 Queen Dream CBG (RSP11283)
- 0.441 Chematonic -Cannatonic x Chemdawg- (RSP11394)
- 0.441 Cherry Blossom (RSP11315)
- 0.439 Queen Dream CBG (RSP11287)
- 0.437 Cherry Blossom (RSP11302)
- 0.436 JL x NSPM1 4 (RSP11482)
- 0.435 Hot Blonde (RSP11292)
- 0.435 Wife (RSP11148)
Most genetically distant strains (Base Tree)
- 0.410 Cbot-2019-001 (RSP11129)
- 0.407 RKM-2018-006 (RSP11097)
- 0.404 Hermaphrodite Research Sample1 (RSP11049)
- 0.401 RKM-2018-028 (RSP11120)
- 0.397 JL yellow (RSP11075)
- 0.396 Cbot-2019-005 (RSP11133)
- 0.396 Italian Kiss (RSP11034)
- 0.395 Cherry (RSP11143)
- 0.394 RKM-2018-018 (RSP11110)
- 0.390 RKM-2018-009 (RSP11100)
- 0.389 RKM-2018-003 (RSP11094)
- 0.388 Blue Dream (RSP11033)
- 0.388 RKM-2018-002 (RSP11093)
- 0.387 UP Sunrise (RSP10989)
- 0.387 Golden Goat 2 (RSP10991)
- 0.385 RKM-2018-032 (RSP11124)
- 0.383 RKM-2018-027 (RSP11119)
- 0.381 Blueberry Cheesecake (RSP10672)
- 0.380 RKM-2018-020 (RSP11112)
- 0.378 Cbot-2019-004 (RSP11132)
Nearest genetic relative in Phylos dataset
- Overlapping SNPs:
- 12
- Concordance:
- 10
Nearest genetic relative in Lynch dataset
- Overlapping SNPs:
- 2
- Concordance:
- 2