R2in135
SRR 14708223
General Information
- Sample Name
- NER3
- 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 |
|
EMF1-2 | c.2256A>T | p.Lys752Asn | missense variant | moderate | contig885 | 3142 | A/T |
|
PHL-2 | c.44G>A | p.Arg15Lys | missense variant | moderate | contig2621 | 337613 | G/A | |
PHL-2 | c.90G>C | p.Glu30Asp | missense variant | moderate | contig2621 | 337659 | G/C |
|
PHL-2 | c.92A>T | p.Asn31Ile | missense variant | moderate | contig2621 | 337661 | A/T |
|
PHL-2 | c.722G>A | p.Gly241Glu | missense variant | moderate | contig2621 | 339860 | G/A |
|
PHL-2 | c.932T>C | p.Leu311Pro | missense variant | moderate | contig2621 | 340210 | T/C | |
PHL-2 | c.1057A>G | p.Arg353Gly | missense variant | moderate | contig2621 | 340335 | A/G | |
PHL-2 | c.1096G>A | p.Ala366Thr | missense variant | moderate | contig2621 | 340374 | G/A | |
PHL-2 | c.2564T>A | p.Phe855Tyr | missense variant | moderate | contig2621 | 342607 | T/A | |
PHL-2 | c.2578T>A | p.Leu860Ile | missense variant | moderate | contig2621 | 342621 | T/A | |
PHL-2 | c.2624C>T | p.Ser875Phe | missense variant | moderate | contig2621 | 342667 | C/T | |
PHL-2 | c.2756A>C | p.Glu919Ala | missense variant | moderate | contig2621 | 342799 | A/C | |
PHL-2 | c.2783G>A | p.Ser928Asn | missense variant | moderate | contig2621 | 342826 | G/A | |
PHL-2 | c.3209A>G | p.Gln1070Arg | missense variant | moderate | contig2621 | 343252 | A/G | |
PHL-2 | c.3467A>G | p.Gln1156Arg | missense variant | moderate | contig2621 | 343510 | A/G | |
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.332A>T | p.Tyr111Phe | missense variant | moderate | contig700 | 2721341 | T/A |
|
PKSG-4b | c.323A>G | p.Glu108Gly | missense variant | moderate | contig700 | 2721350 | T/C |
|
PKSG-4b | c.261G>C | p.Gln87His | missense variant | moderate | contig700 | 2724174 | C/G |
|
PKSG-2a | c.67T>A | p.Phe23Ile | missense variant | moderate | contig700 | 1945567 | A/T | |
DXR-2 | c.1319T>C | p.Ile440Thr | missense variant | moderate | contig380 | 285250 | A/G |
|
OAC-2 | c.260C>G | p.Ser87Cys | missense variant | moderate | contig931 | 109979 | G/C |
|
ELF4 | c.144T>A | p.Asp48Glu | missense variant | moderate | contig869 | 622426 | A/T |
|
ELF3 | c.358G>A | p.Gly120Arg | missense variant | moderate | contig97 | 242064 | G/A | |
ELF3 |
c.364_366del |
p.Lys122del | conservative inframe deletion | moderate | contig97 | 242066 | AAAG/A |
|
ELF3 | c.511C>A | p.Pro171Thr | missense variant | moderate | contig97 | 242217 | C/A |
|
ELF3 | c.520A>C | p.Asn174His | missense variant | moderate | contig97 | 242226 | A/C | |
ELF3 | c.574A>G | p.Asn192Asp | missense variant | moderate | contig97 | 242280 | A/G | |
ELF3 | c.757C>T | p.Pro253Ser | missense variant | moderate | contig97 | 242463 | C/T | |
ELF3 | c.772A>G | p.Ser258Gly | missense variant | moderate | contig97 | 242478 | A/G |
|
ELF3 | c.812G>C | p.Gly271Ala | missense variant | moderate | contig97 | 242518 | G/C | |
ELF3 | c.1366T>G | p.Leu456Val | missense variant | moderate | contig97 | 244197 | T/G |
|
ELF3 | c.1630A>G | p.Thr544Ala | missense variant | moderate | contig97 | 244461 | A/G | |
ELF3 | c.1966C>G | p.Pro656Ala | missense variant | moderate | contig97 | 244797 | C/G | |
ELF3 | c.2140C>T | p.Pro714Ser | missense variant | moderate | contig97 | 244971 | C/T | |
ELF3 | c.2141C>G | p.Pro714Arg | missense variant | moderate | contig97 | 244972 | C/G | |
ELF3 | c.2198G>T | p.Arg733Leu | missense variant | moderate | contig97 | 245029 | G/T | |
aPT1 |
c.95_97delGT |
p.Cys32del | disruptive inframe deletion | moderate | contig121 | 2835800 | ATGT/A | |
aPT1 | c.406A>G | p.Ile136Val | missense variant | moderate | contig121 | 2839605 | A/G | |
AAE1-2 | c.205T>A | p.Ser69Thr | missense variant | moderate | contig81 | 209167 | T/A |
|
AAE1-2 | c.374A>G | p.His125Arg | missense variant | moderate | contig81 | 209336 | A/G |
|
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.1118C>G | p.Thr373Ser | missense variant | moderate | contig81 | 210080 | C/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.1541T>C | p.Val514Ala | missense variant | moderate | contig81 | 210503 | T/C |
|
PHL-1 | c.3133A>G | p.Ile1045Val | missense variant | moderate | contig1439 | 1486664 | T/C |
|
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.489A>T | p.Lys163Asn | missense variant | moderate | contig1439 | 1490874 | T/A |
|
Edestin | c.61G>A | p.Ala21Thr | missense variant | moderate | contig850 | 3065229 | C/T |
|
Edestin | c.16T>C | p.Ser6Pro | missense variant | moderate | contig850 | 3065274 | A/G |
|
PKSG-2b | c.945T>G | p.Ser315Arg | missense variant | moderate | contig700 | 1950693 | A/C |
|
PKSG-2b | c.944G>A | p.Ser315Asn | missense variant | moderate | contig700 | 1950694 | C/T |
|
PKSG-2b | c.934C>G | p.His312Asp | missense variant | moderate | contig700 | 1950704 | G/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.136G>A | p.Val46Ile | missense variant | moderate | contig1891 | 889256 | C/T | |
HDS-1 | c.56C>G | p.Ala19Gly | missense variant | moderate | contig1891 | 889336 | G/C | |
HDS-1 | c.51C>G | p.Asp17Glu | missense variant | moderate | contig1891 | 889341 | G/C |
|
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.2027A>T | p.Gln676Leu | missense variant | moderate | contig1460 | 1190013 | T/A | |
PIE1-2 | c.1872T>A | p.Asp624Glu | missense variant | moderate | contig1460 | 1190252 | A/T | |
PIE1-2 | c.1846A>G | p.Lys616Glu | missense variant | moderate | contig1460 | 1190278 | T/C |
|
PIE1-2 | c.710C>T | p.Pro237Leu | missense variant | moderate | contig1460 | 1193804 | G/A | |
PIE1-2 | c.706T>C | p.Tyr236His | missense variant | moderate | contig1460 | 1193808 | A/G | |
PIE1-2 | c.637T>A | p.Ser213Thr | missense variant | moderate | contig1460 | 1194421 | A/T | |
EMF2 | c.722C>T | p.Thr241Ile | missense variant | moderate | contig954 | 3050302 | C/T | |
EMF2 | c.963dupT | p.Ala322fs | frameshift variant | high | contig954 | 3052785 | G/GT |
|
EMF2 | c.967delA | p.Ser323fs | frameshift variant | high | contig954 | 3052788 | CA/C |
|
EMF2 | c.1183G>A | p.Glu395Lys | missense variant | moderate | contig954 | 3054195 | G/A |
|
EMF2 | c.1205C>T | p.Ala402Val | missense variant & splice region variant | moderate | contig954 | 3055694 | C/T | |
EMF2 | c.1228A>G | p.Ser410Gly | missense variant | moderate | contig954 | 3055717 | A/G |
|
EMF2 | c.1315G>C | p.Ala439Pro | missense variant | moderate | contig954 | 3055804 | G/C | |
EMF2 | c.1742C>G | p.Thr581Ser | missense variant | moderate | contig954 | 3059899 | C/G |
|
EMF2 | c.1772A>G | p.Gln591Arg | missense variant | moderate | contig954 | 3059929 | A/G | |
EMF1-1 | c.242A>G | p.Lys81Arg | missense variant | moderate | contig883 | 269731 | A/G | |
FT |
c.435_436ins |
p.Met146fs | frameshift variant | high | contig1561 | 3126671 | T/TGTAC |
|
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.198A>C | p.Lys66Asn | missense variant | moderate | contig121 | 2828854 | A/C |
|
aPT4 | c.202T>A | p.Leu68Ile | missense variant | moderate | contig121 | 2828858 | T/A |
|
aPT4 |
c.235_236del |
p.Val79fs | frameshift variant | high | contig121 | 2829030 | ATG/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.2686G>A | p.Ala896Thr | missense variant | moderate | contig1450 | 2044848 | C/T | |
FLD | c.296G>A | p.Ser99Asn | missense variant | moderate | contig1450 | 2047738 | C/T |
|
AAE1-3 | c.353C>T | p.Ala118Val | missense variant | moderate | contig976 | 1083672 | G/A |
|
AAE1-3 | c.293A>G | p.Asp98Gly | missense variant | moderate | contig976 | 1083732 | T/C |
|
AAE1-3 | c.260T>C | p.Val87Ala | missense variant | moderate | contig976 | 1083765 | A/G |
|
AAE1-3 | c.52G>A | p.Gly18Ser | missense variant | moderate | contig976 | 1084023 | C/T |
|
AAE1-3 | c.45C>A | p.His15Gln | missense variant | moderate | contig976 | 1084030 | G/T |
|
GGR | c.32C>A | p.Thr11Lys | missense variant | moderate | contig2282 | 549024 | C/A |
|
GGR | c.317C>T | p.Pro106Leu | missense variant | moderate | contig2282 | 549309 | C/T | |
GGR |
c.358_359del |
p.Ala120fs | frameshift variant | high | contig2282 | 549348 | ACG/A |
|
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.456T>A | p.His152Gln | missense variant | moderate | contig2282 | 549448 | T/A |
|
GGR | c.460G>A | p.Asp154Asn | missense variant | moderate | contig2282 | 549452 | G/A |
|
GGR | c.541G>A | p.Val181Ile | missense variant | moderate | contig2282 | 549533 | G/A |
|
GGR | c.704A>T | p.His235Leu | missense variant | moderate | contig2282 | 549696 | A/T |
|
PKSB-3 | c.509T>C | p.Val170Ala | missense variant & splice region variant | moderate | contig93 | 3336743 | T/C |
|
Nearest genetic relatives (All Samples)
- 0.214 Tisza (RSP10659)
- 0.221 USO 31 (RSP10983)
- 0.222 Tygra (RSP10667)
- 0.223 Monoica (RSP10241)
- 0.223 Santhica 27 (RSP10665)
- 0.224 C-930 lot 211005 (RSP12603)
- 0.225 Lovrin (RSP10658)
- 0.227 Santhica27 (RSP10056)
- 0.227 Fedora 17 (RSP10661)
- 0.228 Fedora 17 (SRR14708222)
- 0.230 USO31 (RSP10233)
- 0.231 VIR 469 (SRR14708243)
- 0.232 KYRG-151 (RSP11052)
- 0.233 USO 31 (RSP10981)
- 0.233 Fedora 17 (RSP11203)
- 0.234 Santhica27 (RSP11047)
- 0.234 Juso14 (SRR14708259)
- 0.235 R2in135 (SRR14708221)
- 0.235 Diana (RSP10235)
- 0.235 R2in135 (SRR14708236)
Nearest genetic relatives (Base Tree)
- 0.207 Tygra (RSP10667)
- 0.219 Lovrin (RSP10658)
- 0.222 Fedora 17 (RSP10661)
- 0.222 Monoica (RSP10241)
- 0.227 Tisza (RSP10659)
- 0.229 USO 31 (RSP10981)
- 0.233 Futura 75 (RSP10664)
- 0.240 KYRG-11 (RSP11051)
- 0.241 Kyrgyz Gold (RSP11054)
- 0.242 Santhica27 (RSP11047)
- 0.243 Carmagnola (RSP11037)
- 0.245 Carmagnola (RSP10979)
- 0.247 Tisza (RSP11044)
- 0.248 Jiangji (RSP10653)
- 0.257 Ivory (RSP10668)
- 0.272 Feral (RSP10890)
- 0.290 Recon (RSP10755)
- 0.296 Liberty Haze (RSP11000)
- 0.299 Kimbo Slice (RSP10997)
- 0.304 RKM-2018-029 (RSP11121)
Most genetically distant strains (All Samples)
- 0.431 Cherry Blossom (RSP11301)
- 0.428 Cherry Blossom (RSP11318)
- 0.427 Cherry Blossom (RSP11323)
- 0.424 Cherry Blossom (RSP11300)
- 0.416 Cherry Blossom (RSP11328)
- 0.415 Unknown--Cherry Wine---001- (RSP11268)
- 0.412 Medxotic (RSP11410)
- 0.411 Chem 91 (RSP11185)
- 0.408 Cherry Blossom (RSP11312)
- 0.407 AVIDEKEL 2 0 (RSP11174)
- 0.407 Queen Dream CBG (RSP11287)
- 0.405 Chematonic -Cannatonic x Chemdawg- (RSP11394)
- 0.402 Northern Skunk (RSP11456)
- 0.401 Cherry Blossom (RSP11331)
- 0.401 Cherry Blossom (RSP11298)
- 0.401 Danny Noonan (RSP11070)
- 0.401 Cherry Blossom (RSP11311)
- 0.400 Wilburs Great Adventure (RSP11727)
- 0.396 White Label 1 (RSP11336)
- 0.395 Ringo s Gift -Katie s Cut- (RSP11624)
Most genetically distant strains (Base Tree)
- 0.395 Cbot-2019-005 (RSP11133)
- 0.391 RKM-2018-028 (RSP11120)
- 0.387 RKM-2018-002 (RSP11093)
- 0.378 JL yellow (RSP11075)
- 0.371 Kush Hemp E1 (RSP11128)
- 0.368 Cbot-2019-001 (RSP11129)
- 0.363 Skunk#18 (RSP11038)
- 0.363 Cherry (RSP11143)
- 0.361 RKM-2018-009 (RSP11100)
- 0.360 RKM-2018-004 (RSP11096)
- 0.359 RKM-2018-018 (RSP11110)
- 0.358 Cherry (RSP11142)
- 0.357 RKM-2018-032 (RSP11124)
- 0.357 RKM-2018-022 (RSP11114)
- 0.357 RKM-2018-003 (RSP11094)
- 0.356 RKM-2018-023 (RSP11115)
- 0.355 RKM-2018-027 (RSP11119)
- 0.354 Hermaphrodite Research Sample1 (RSP11049)
- 0.352 RKM-2018-006 (RSP11097)
- 0.351 Cbot-2019-004 (RSP11132)
Nearest genetic relative in Phylos dataset
- Overlapping SNPs:
- 16
- Concordance:
- 12
Nearest genetic relative in Lynch dataset
- Overlapping SNPs:
- 4
- Concordance:
- 4