R3in134
SRR 14708219
General Information
- Sample Name
- NEB3
- 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
- Type II
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)
No variants to report
Variants (Select Genes of Interest)
GPPs1 |
c.845_848del |
p.Glu282fs | frameshift variant | high | contig676 | 169629 | TGAAA/T |
|
GPPs1 | c.865T>G | p.Leu289Val | missense variant | moderate | contig676 | 169655 | T/G |
|
GPPs1 | c.896A>G | p.Asn299Ser | missense variant | moderate | contig676 | 169772 | A/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.3202A>C | p.Thr1068Pro | missense variant | moderate | contig2621 | 343245 | A/C |
|
PHL-2 | c.3209A>G | p.Gln1070Arg | missense variant | moderate | contig2621 | 343252 | A/G | |
PHL-2 | c.3494C>G | p.Ser1165Trp | missense variant | moderate | contig2621 | 343537 | C/G |
|
PKSG-4b | c.554A>G | p.Tyr185Cys | missense variant | moderate | contig700 | 2721119 | T/C |
|
PKSG-4b | c.544G>T | p.Gly182Trp | missense variant | moderate | contig700 | 2721129 | C/A |
|
PKSG-4b | c.489delT | p.Phe163fs | frameshift variant | high | contig700 | 2721183 | CA/C | |
PKSG-4b | c.431T>G | p.Val144Gly | missense variant | moderate | contig700 | 2721242 | A/C | |
PKSG-4b |
c.352_355del |
p.Thr118fs | frameshift variant | high | contig700 | 2721317 | CCTGT/C |
|
PKSG-4b |
c.353_354ins |
p.Gly119fs | frameshift variant | high | contig700 | 2721319 | T/TGG |
|
PKSG-4b | c.338G>A | p.Gly113Glu | missense variant | moderate | contig700 | 2721335 | C/T |
|
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 |
|
DXR-2 | c.1319T>C | p.Ile440Thr | missense variant | moderate | contig380 | 285250 | A/G |
|
OAC-2 |
c.102_103ins |
p.Pro35fs | frameshift variant | high | contig931 | 110236 | G/GGATC |
|
ELF3 | c.574A>G | p.Asn192Asp | missense variant | moderate | contig97 | 242280 | A/G | |
ELF3 | c.1366T>G | p.Leu456Val | missense variant | moderate | contig97 | 244197 | T/G |
|
ELF3 | c.1385C>T | p.Ala462Val | missense variant | moderate | contig97 | 244216 | C/T |
|
ELF3 | c.1466G>A | p.Ser489Asn | missense variant | moderate | contig97 | 244297 | G/A |
|
ELF3 | c.1630A>G | p.Thr544Ala | missense variant | moderate | contig97 | 244461 | A/G | |
ELF3 | c.1832A>G | p.Tyr611Cys | missense variant | moderate | contig97 | 244663 | A/G |
|
aPT1 | c.670T>A | p.Ser224Thr | missense variant | moderate | contig121 | 2840278 | T/A |
|
aPT1 | c.715G>C | p.Ala239Pro | missense variant | moderate | contig121 | 2841350 | G/C |
|
aPT1 | c.727G>T | p.Glu243* | stop gained | high | contig121 | 2841362 | G/T | |
aPT1 | c.936A>C | p.Leu312Phe | missense variant | moderate | contig121 | 2842582 | A/C |
|
aPT1 | c.938C>T | p.Thr313Ile | missense variant | moderate | contig121 | 2842584 | C/T |
|
aPT1 | c.958G>A | p.Gly320Ser | missense variant | moderate | contig121 | 2842731 | G/A |
|
AAE1-2 | c.1006A>G | p.Lys336Glu | missense variant | moderate | contig81 | 209968 | A/G |
|
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.2813C>A | p.Pro938Gln | missense variant | moderate | contig1439 | 1486984 | 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 | |
PHL-1 | c.1387A>G | p.Thr463Ala | missense variant | moderate | contig1439 | 1489811 | T/C | |
PHL-1 | c.919A>G | p.Ser307Gly | missense variant | moderate | contig1439 | 1490279 | T/C |
|
PHL-1 | c.317C>T | p.Thr106Met | missense variant | moderate | contig1439 | 1492393 | G/A |
|
Edestin | c.16T>G | p.Ser6Ala | missense variant | moderate | contig850 | 3065274 | A/C |
|
PKSG-2b |
c.-5_1delATA |
p.Met1del | start lost & conservative inframe deletion | high | contig700 | 1951880 | ATATTAT/A |
|
TFL1 | c.302-1G>A | splice acceptor variant & intron variant | high | contig1636 | 520616 | C/T | ||
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.136G>A | p.Val46Ile | missense variant | moderate | contig1891 | 889256 | C/T | |
HDS-1 |
c.-108+1_-10 |
splice donor variant & intron variant | high | contig1891 | 889975 | A/AC |
|
|
PIE1-2 | c.1289A>G | p.Asp430Gly | missense variant | moderate | contig1460 | 1192109 | T/C |
|
EMF2 | c.1772A>G | p.Gln591Arg | missense variant | moderate | contig954 | 3059929 | A/G | |
aPT4 | c.16G>A | p.Val6Ile | missense variant | moderate | contig121 | 2828672 | G/A |
|
aPT4 | c.97T>C | p.Tyr33His | missense variant | moderate | contig121 | 2828753 | T/C |
|
aPT4 | c.153A>C | p.Lys51Asn | missense variant | moderate | contig121 | 2828809 | A/C |
|
aPT4 | c.355A>T | p.Ile119Phe | missense variant | moderate | contig121 | 2829152 | A/T |
|
aPT4 | c.916C>T | p.His306Tyr | missense variant & splice region variant | moderate | contig121 | 2832711 | C/T |
|
aPT4 | c.1168T>C | p.Tyr390His | missense variant | moderate | contig121 | 2833503 | T/C |
|
FLD | c.2869C>T | p.His957Tyr | missense variant | moderate | contig1450 | 2044163 | G/A |
|
AAE1-3 | c.167A>G | p.Glu56Gly | missense variant | moderate | contig976 | 1083908 | T/C |
|
AAE1-3 | c.118G>A | p.Ala40Thr | missense variant | moderate | contig976 | 1083957 | C/T |
|
AAE1-3 | c.53G>T | p.Gly18Val | missense variant | moderate | contig976 | 1084022 | C/A |
|
GGR | c.317C>T | p.Pro106Leu | missense variant | moderate | contig2282 | 549309 | C/T | |
GGR | c.376G>C | p.Glu126Gln | missense variant | moderate | contig2282 | 549368 | G/C | |
GGR | c.382C>T | p.Leu128Phe | missense variant | moderate | contig2282 | 549374 | C/T |
|
GGR | c.704A>T | p.His235Leu | missense variant | moderate | contig2282 | 549696 | A/T |
|
PKSB-3 | c.25C>T | p.His9Tyr | missense variant | moderate | contig93 | 3333316 | C/T |
|
Nearest genetic relatives (All Samples)
- 0.175 KYRG-11 (RSP11051)
- 0.176 R3in134 (SRR14708220)
- 0.183 R3in134 (SRR14708235)
- 0.191 UnObtanium (RSP11611)
- 0.199 R2in135 (SRR14708236)
- 0.205 QHI (SRR14708202)
- 0.207 Mexican Sativa (SRR14708263)
- 0.208 B52 (SRR14708255)
- 0.212 R3in134 (SRR14708218)
- 0.217 Electra (RSP11366)
- 0.221 AOAC MI 567 (RSP11758)
- 0.221 AOAC MI 597 (RSP11761)
- 0.229 VIR 469 (SRR14708242)
- 0.230 AOAC MI 501 (RSP11748)
- 0.230 PEU (SRR14708215)
- 0.231 Lift (RSP11378)
- 0.232 XUM2 (SRR14708204)
- 0.233 AOAC MI 542 (RSP11755)
- 0.234 Cherry Gar-See-Ya (RSP11642)
- 0.235 AOAC MI 533 (RSP11753)
Nearest genetic relatives (Base Tree)
- 0.203 KYRG-11 (RSP11051)
- 0.205 Blueberry Cheesecake (RSP10684)
- 0.236 Liberty Haze (RSP11000)
- 0.250 Jiangji (RSP10653)
- 0.253 USO 31 (RSP10981)
- 0.279 Gold Cracker (RSP11048)
- 0.280 RKM-2018-020 (RSP11112)
- 0.282 RKM-2018-005 (RSP11096)
- 0.283 RKM-2018-019 (RSP11111)
- 0.284 Durban Poison (RSP11014)
- 0.285 Pie Hoe (RSP11073)
- 0.291 UP Sunrise (RSP10989)
- 0.295 Skywalker OG (RSP10837)
- 0.296 Cbot-2019-006 (RSP11134)
- 0.298 RKM-2018-018 (RSP11110)
- 0.302 Tygra (RSP10667)
- 0.306 RKM-2018-027 (RSP11119)
- 0.306 Tisza (RSP11044)
- 0.307 Golden Goat 2 (RSP10991)
- 0.309 Blue Dream (RSP11033)
Most genetically distant strains (All Samples)
- 0.460 JL yellow (RSP11075)
- 0.449 JL 4th Gen 3 (RSP11195)
- 0.448 JL 4th Gen 5 (RSP11199)
- 0.446 Chematonic Cannatonic x Chemdawg (RSP11394)
- 0.443 JL 3rd Gen Mother (RSP11214)
- 0.440 JL 4th Gen 1 (RSP11193)
- 0.422 JL 4th Gen 4 (RSP11198)
- 0.415 JL 3rd Gen Father (RSP11196)
- 0.412 Cherry Blossom (RSP11301)
- 0.412 JL 4th Gen 2 (RSP11194)
- 0.405 Wife (RSP11148)
- 0.404 Cherry Blossom (RSP11298)
- 0.403 Cherry Blossom (RSP11309)
- 0.400 JL 3rd Gen Mother (RSP11197)
- 0.397 80E (RSP11213)
- 0.394 Feral (RSP11206)
- 0.392 JL 2 (RSP11076)
- 0.391 80E (RSP11211)
- 0.385 Tanao Sri 46 (RSP11486)
- 0.384 Northern Lights (RSP11501)
Most genetically distant strains (Base Tree)
- 0.473 JL yellow (RSP11075)
- 0.388 RKM-2018-006 (RSP11097)
- 0.383 Ivory (RSP10668)
- 0.380 Sour Raspberry (RSP10551)
- 0.373 Skunk 18 (RSP11038)
- 0.373 RKM-2018-003 (RSP11094)
- 0.371 Cbot-2019-004 (RSP11132)
- 0.364 Santhica27 (RSP11047)
- 0.362 CST (RSP11002)
- 0.358 Blueberry Cheesecake (RSP10672)
- 0.357 Cherry (RSP11142)
- 0.355 Cbot-2019-005 (RSP11133)
- 0.354 Cbot-2019-001 (RSP11129)
- 0.352 Italian Kiss (RSP11034)
- 0.352 RKM-2018-028 (RSP11120)
- 0.348 Tisza (RSP10659)
- 0.346 RKM-2018-033 (RSP11125)
- 0.344 Black Beauty (RSP11035)
- 0.341 Feral (RSP10890)
- 0.341 Kimbo Slice (RSP10997)
Nearest genetic relative in Phylos dataset
- Overlapping SNPs:
- 12
- Concordance:
- 11
Nearest genetic relative in Lynch dataset
- Overlapping SNPs:
- 3
- Concordance:
- 2