R2in135
SRR 14708221
General Information
- Sample Name
- NER4
- 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)
CBDAS | c.8G>A | p.Cys3Tyr | missense variant | moderate | contig1772 | 2082234 | G/A |
|
CBDAS | c.221C>G | p.Thr74Ser | missense variant | moderate | contig1772 | 2082447 | C/G | |
CBDAS | c.503A>G | p.Asn168Ser | missense variant | moderate | contig1772 | 2082729 | A/G | |
CBDAS | c.587A>G | p.Asn196Ser | missense variant | moderate | contig1772 | 2082813 | A/G | |
CBDAS | c.1420A>C | p.Lys474Gln | missense variant | moderate | contig1772 | 2083646 | A/C | |
CBDAS | c.1628G>A | p.Arg543His | missense variant | moderate | contig1772 | 2083854 | G/A |
|
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 |
|
EMF1-2 | c.710A>C | p.His237Pro | missense variant | moderate | contig885 | 810 | A/C | |
EMF1-2 | c.1187T>C | p.Leu396Ser | missense variant | moderate | contig885 | 2073 | T/C |
|
PHL-2 | c.455A>C | p.Asp152Ala | missense variant | moderate | contig2621 | 339191 | A/C | |
PHL-2 | c.2596G>A | p.Asp866Asn | missense variant | moderate | contig2621 | 342639 | G/A |
|
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.3020T>A | p.Ile1007Asn | missense variant | moderate | contig2621 | 343063 | T/A |
|
PHL-2 | c.3202A>C | p.Thr1068Pro | missense variant | moderate | contig2621 | 343245 | A/C |
|
PHL-2 | c.3279G>T | p.Gln1093His | missense variant | moderate | contig2621 | 343322 | G/T |
|
PHL-2 | c.3545C>T | p.Thr1182Met | missense variant | moderate | contig2621 | 343588 | C/T |
|
PKSG-4b | c.496A>G | p.Lys166Glu | missense variant | moderate | contig700 | 2721177 | T/C | |
PKSG-4b | c.489delT | p.Phe163fs | frameshift variant | high | contig700 | 2721183 | CA/C | |
PKSG-4b | c.485A>G | p.Lys162Arg | missense variant | moderate | contig700 | 2721188 | T/C | |
PKSG-4b | c.476T>C | p.Val159Ala | missense variant | moderate | contig700 | 2721197 | A/G |
|
PKSG-4b |
c.352_355del |
p.Thr118fs | frameshift variant | high | contig700 | 2721317 | CCTGT/C |
|
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.316+2T>A | splice donor variant & intron variant | high | contig700 | 2723818 | A/T | ||
PKSG-4b | c.229G>A | p.Gly77Ser | missense variant | moderate | contig700 | 2724206 | C/T |
|
PKSG-4b | c.216G>C | p.Leu72Phe | missense variant | moderate | contig700 | 2724219 | C/G |
|
PKSG-4b | c.206T>C | p.Leu69Ser | missense variant | moderate | contig700 | 2724229 | A/G |
|
PKSG-4a | c.47A>T | p.Glu16Val | missense variant | moderate | contig700 | 1936744 | A/T |
|
PKSG-2a | c.241G>A | p.Val81Met | missense variant | moderate | contig700 | 1945149 | C/T |
|
PKSG-2a | c.240T>G | p.Asp80Glu | missense variant | moderate | contig700 | 1945150 | A/C |
|
PKSG-2a | c.224A>G | p.Lys75Arg | missense variant | moderate | contig700 | 1945166 | T/C | |
PKSG-2a | c.188T>G | p.Ile63Ser | missense variant | moderate | contig700 | 1945202 | A/C |
|
PKSG-2a | c.187A>T | p.Ile63Phe | missense variant | moderate | contig700 | 1945203 | T/A |
|
PKSG-2a | c.167C>G | p.Thr56Ser | missense variant | moderate | contig700 | 1945223 | G/C |
|
PKSG-2a | c.67T>A | p.Phe23Ile | missense variant | moderate | contig700 | 1945567 | A/T | |
PKSG-2a | c.31A>T | p.Thr11Ser | missense variant | moderate | contig700 | 1945603 | T/A | |
OAC-2 | c.175G>A | p.Val59Ile | missense variant | moderate | contig931 | 110064 | C/T |
|
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.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.1230-2_123 |
splice acceptor variant & intron variant | high | contig97 | 243676 | TAG/T | ||
ELF3 | c.1366T>G | p.Leu456Val | missense variant | moderate | contig97 | 244197 | T/G |
|
ELF3 | c.1435G>C | p.Ala479Pro | missense variant | moderate | contig97 | 244266 | G/C |
|
ELF3 | c.1466G>A | p.Ser489Asn | missense variant | moderate | contig97 | 244297 | G/A |
|
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.574A>T | p.Met192Leu | missense variant | moderate | contig121 | 2840182 | A/T |
|
aPT1 | c.629C>T | p.Thr210Ile | missense variant | moderate | contig121 | 2840237 | C/T | |
aPT1 | c.864C>G | p.Asn288Lys | missense variant | moderate | contig121 | 2842407 | C/G | |
OAC-1 | c.260C>G | p.Ser87Cys | missense variant | moderate | contig931 | 118104 | G/C |
|
OAC-1 | c.220A>G | p.Ile74Val | missense variant | moderate | contig931 | 118144 | T/C | |
OAC-1 | c.185C>T | p.Thr62Ile | missense variant | moderate | contig931 | 118179 | G/A |
|
OAC-1 | c.175G>A | p.Val59Ile | missense variant | moderate | contig931 | 118189 | C/T |
|
HDS-2 | c.679G>C | p.Gly227Arg | missense variant | moderate | contig95 | 1990632 | G/C |
|
AAE1-2 | c.205T>A | p.Ser69Thr | missense variant | moderate | contig81 | 209167 | T/A |
|
AAE1-2 |
c.285_290dup |
p.Ser96_Ser9 |
disruptive inframe insertion | moderate | contig81 | 209243 | A/AATCCTC |
|
AAE1-2 | c.331A>G | p.Asn111Asp | missense variant | moderate | contig81 | 209293 | A/G |
|
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.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 |
|
AAE1-2 | c.1541T>C | p.Val514Ala | missense variant | moderate | contig81 | 210503 | T/C |
|
PHL-1 | c.2623A>G | p.Thr875Ala | missense variant | moderate | contig1439 | 1487174 | T/C |
|
PHL-1 | c.1387A>G | p.Thr463Ala | missense variant | moderate | contig1439 | 1489811 | T/C | |
PKSG-2b | c.948T>G | p.Asp316Glu | missense variant | moderate | contig700 | 1950690 | A/C |
|
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.93C>A | p.Asp31Glu | missense variant | moderate | contig700 | 1951789 | G/T |
|
PKSG-2b | c.67A>T | p.Ile23Phe | missense variant | moderate | contig700 | 1951815 | T/A | |
PKSG-2b | c.31A>T | p.Thr11Ser | missense variant | moderate | contig700 | 1951851 | T/A | |
PKSG-2b | c.-2_1dupATA | start lost & conservative inframe insertion | high | contig700 | 1951880 | A/ATAT |
|
|
TFL1 | c.302-1G>A | splice acceptor variant & intron variant | high | contig1636 | 520616 | C/T | ||
DXR-1 | c.1147A>G | p.Ile383Val | missense variant | moderate | contig380 | 232148 | T/C |
|
DXR-1 | c.124G>A | p.Val42Ile | missense variant | moderate | contig380 | 235311 | 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.56C>G | p.Ala19Gly | missense variant | moderate | contig1891 | 889336 | G/C | |
PIE1-2 | c.6636T>G | p.Asp2212Glu | missense variant | moderate | contig1460 | 1184451 | A/C | |
PIE1-2 | c.6623C>T | p.Ala2208Val | missense variant | moderate | contig1460 | 1184464 | G/A | |
PIE1-2 | c.5932A>G | p.Ile1978Val | missense variant | moderate | contig1460 | 1185552 | 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 | |
EMF2 | c.434C>T | p.Ser145Phe | missense variant | moderate | contig954 | 3049270 | C/T | |
EMF2 | c.722C>T | p.Thr241Ile | missense variant | moderate | contig954 | 3050302 | C/T | |
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.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 | |
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.757G>T | p.Val253Leu | missense variant | moderate | contig121 | 2831364 | G/T |
|
aPT4 | c.1168T>C | p.Tyr390His | missense variant | moderate | contig121 | 2833503 | T/C |
|
FLD | c.2964C>A | p.Asp988Glu | missense variant | moderate | contig1450 | 2044029 | G/T | |
FLD | c.2929T>C | p.Phe977Leu | missense variant | moderate | contig1450 | 2044103 | A/G | |
FLD | c.2686G>A | p.Ala896Thr | missense variant | moderate | contig1450 | 2044848 | C/T | |
FLD | c.125G>A | p.Ser42Asn | missense variant | moderate | contig1450 | 2047909 | C/T | |
PIE1-1 | c.1222C>G | p.Gln408Glu | missense variant | moderate | contig1225 | 2281482 | C/G | |
GGR | c.32C>A | p.Thr11Lys | missense variant | moderate | contig2282 | 549024 | C/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.413G>A | p.Cys138Tyr | missense variant | moderate | contig2282 | 549405 | G/A |
|
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.514A>T | p.Ile172Phe | missense variant | moderate | contig2282 | 549506 | A/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 |
|
GGR | c.746G>A | p.Gly249Glu | missense variant | moderate | contig2282 | 549738 | G/A |
|
GGR | c.826A>G | p.Arg276Gly | missense variant | moderate | contig2282 | 549818 | A/G |
|
PKSB-3 | c.509T>C | p.Val170Ala | missense variant & splice region variant | moderate | contig93 | 3336743 | T/C |
|
PKSB-3 | c.1490C>T | p.Ala497Val | missense variant | moderate | contig93 | 3339597 | C/T |
|
PKSB-3 | c.1887T>A | p.His629Gln | missense variant | moderate | contig93 | 3339994 | T/A |
|
FAD2 | c.1115G>T | p.Gly372Val | missense variant | moderate | contig1460 | 1083145 | C/A |
|
FAD2 |
c.1109_1111d |
p.Gly370dup | conservative inframe insertion | moderate | contig1460 | 1083148 | T/TCAC |
|
Nearest genetic relatives (All Samples)
- 0.153 AOAC MI 501 (RSP11748)
- 0.153 B52 (SRR14708255)
- 0.154 AOAC MI 504 (RSP11749)
- 0.154 AOAC MI 597 (RSP11761)
- 0.156 AOAC MI 533 (RSP11753)
- 0.158 AOAC MI 542 (RSP11755)
- 0.158 AOAC MI 599 (RSP11762)
- 0.161 Blue Dream (RSP11007)
- 0.163 AOAC MI 535 (RSP11754)
- 0.163 AOAC MI 548 (RSP11757)
- 0.163 AOAC MI 569 (RSP11759)
- 0.165 AOAC MI 567 (RSP11758)
- 0.167 AOAC MI 588 (RSP11760)
- 0.168 AOAC MI 545 (RSP11756)
- 0.170 AOAC MI 508 (RSP11750)
- 0.172 AOAC MI 532 (RSP11752)
- 0.175 Durban Poison 1 (RSP10996)
- 0.176 R1in136 (SRR14708237)
- 0.183 Lift (RSP11378)
- 0.194 Kompolti (SRR14708277)
Nearest genetic relatives (Base Tree)
- 0.207 Tygra (RSP10667)
- 0.216 KYRG-11 (RSP11051)
- 0.223 Blueberry Cheesecake (RSP10684)
- 0.226 UP Sunrise (RSP10989)
- 0.230 Liberty Haze (RSP11000)
- 0.242 RKM-2018-005 (RSP11096)
- 0.261 Golden Goat 2 (RSP10991)
- 0.262 Lovrin (RSP10658)
- 0.262 Kyrgyz Gold (RSP11054)
- 0.262 Hermaphrodite ResearchSample2 (RSP11050)
- 0.268 Fedora 17 (RSP10661)
- 0.268 Santhica27 (RSP11047)
- 0.269 Futura 75 (RSP10664)
- 0.270 Monoica (RSP10241)
- 0.274 Kimbo Slice (RSP10997)
- 0.278 Ivory (RSP10668)
- 0.279 Cherry (RSP11143)
- 0.281 Gold Cracker (RSP11048)
- 0.283 Tisza (RSP10659)
- 0.289 Jiangji (RSP10653)
Most genetically distant strains (All Samples)
- 0.448 JL yellow (RSP11075)
- 0.431 JL 4th Gen 5 (RSP11199)
- 0.426 Chematonic Cannatonic x Chemdawg (RSP11394)
- 0.426 80E (RSP11213)
- 0.423 JL 3rd Gen Mother (RSP11214)
- 0.422 JL 4th Gen 1 (RSP11193)
- 0.412 JL 4th Gen 4 (RSP11198)
- 0.412 Danny Noonan (RSP11070)
- 0.408 Tanao Sri-white-T1 (RSP11658)
- 0.401 JL 4th Gen 2 (RSP11194)
- 0.401 Cbot-2019-005 (RSP11133)
- 0.398 JL 4th Gen 6 (RSP11200)
- 0.397 JL 3rd Gen Father (RSP11196)
- 0.395 JL 2 (RSP11076)
- 0.393 Cbot-2019-003 (RSP11131)
- 0.393 80E (RSP11212)
- 0.392 Tanao Sri 46 (RSP11486)
- 0.390 YMCM (RSP11416)
- 0.390 JL 3rd Gen Mother (RSP11197)
- 0.387 Northern Lights (RSP11501)
Most genetically distant strains (Base Tree)
- 0.431 JL yellow (RSP11075)
- 0.410 Cbot-2019-005 (RSP11133)
- 0.380 RKM-2018-006 (RSP11097)
- 0.375 Carmagnola (RSP10979)
- 0.366 RKM-2018-002 (RSP11093)
- 0.365 Cbot-2019-004 (RSP11132)
- 0.350 RKM-2018-034 (RSP11126)
- 0.350 RKM-2018-026 (RSP11118)
- 0.347 RKM-2018-022 (RSP11114)
- 0.342 Kush Hemp E1 (RSP11128)
- 0.340 Cbot-2019-001 (RSP11129)
- 0.339 Cbot-2019-006 (RSP11134)
- 0.338 Skywalker OG (RSP10837)
- 0.336 QUEEN JESUS (RSP10105)
- 0.333 Blueberry Cheesecake (RSP10672)
- 0.328 Black Beauty (RSP11035)
- 0.326 RKM-2018-003 (RSP11094)
- 0.326 Blueberry Cheesecake (RSP10680)
- 0.325 CST (RSP11002)
- 0.325 RKM-2018-023 (RSP11115)
Nearest genetic relative in Phylos dataset
- Overlapping SNPs:
- 18
- Concordance:
- 14
Nearest genetic relative in Lynch dataset
- Overlapping SNPs:
- 5
- Concordance:
- 5