R2in135
SRR 14708224
General Information
- Sample Name
- NER2
- 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 I
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.744C>G | p.Asp248Glu | missense variant | moderate | contig676 | 168993 | C/G |
|
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.885+1G>T | splice donor variant & intron variant | high | contig676 | 169676 | G/T |
|
|
GPPs1 | c.896A>G | p.Asn299Ser | missense variant | moderate | contig676 | 169772 | A/G |
|
DXR-2 | c.1319T>C | p.Ile440Thr | missense variant | moderate | contig380 | 285250 | A/G |
|
ELF3 | c.520A>C | p.Asn174His | missense variant | moderate | contig97 | 242226 | A/C | |
ELF5 | c.365A>G | p.Lys122Arg | missense variant | moderate | contig382 | 880053 | A/G |
|
ELF5 | c.1312C>A | p.Pro438Thr | missense variant | moderate | contig382 | 881282 | C/A |
|
ELF5 | c.1313C>T | p.Pro438Leu | missense variant | moderate | contig382 | 881283 | C/T |
|
OAC-1 | c.22G>A | p.Val8Ile | missense variant | moderate | contig931 | 118442 | C/T |
|
AAE1-2 | c.1541T>C | p.Val514Ala | missense variant | moderate | contig81 | 210503 | T/C |
|
PKSG-2b |
c.-5_1delATA |
p.Met1del | start lost & conservative inframe deletion | high | contig700 | 1951880 | ATATTAT/A |
|
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 |
|
|
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.1183G>A | p.Glu395Lys | missense variant | moderate | contig954 | 3054195 | G/A |
|
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 | |
FT | c.240C>G | p.Asn80Lys | missense variant | moderate | contig1561 | 3124664 | C/G |
|
FT |
c.413_413+1i |
splice donor variant & intron variant | high | contig1561 | 3126450 | T/TGTATGCA |
|
|
FT | c.419G>A | p.Ser140Asn | missense variant | moderate | contig1561 | 3126658 | G/A | |
FT |
c.421_422dup |
p.Leu142fs | frameshift variant | high | contig1561 | 3126659 | C/CTA |
|
FT | c.424C>A | p.Leu142Ile | missense variant | moderate | contig1561 | 3126663 | C/A |
|
FT | c.440A>C |
p.Ter147Sere |
stop lost & splice region variant | high | contig1561 | 3126679 | 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 |
|
aPT4 | c.450G>A | p.Met150Ile | missense variant | moderate | contig121 | 2830645 | G/A |
|
FLD | c.2686G>A | p.Ala896Thr | missense variant | moderate | contig1450 | 2044848 | C/T | |
FLD | c.2681T>C | p.Ile894Thr | missense variant | moderate | contig1450 | 2044853 | A/G | |
FLD |
c.2598-2_259 |
splice acceptor variant & intron variant | high | contig1450 | 2044937 | C/CT |
|
|
AAE1-3 | c.416T>C | p.Leu139Pro | missense variant | moderate | contig976 | 1083609 | A/G |
|
AAE1-3 | c.224C>T | p.Pro75Leu | missense variant | moderate | contig976 | 1083851 | G/A |
|
AAE1-3 | c.208G>C | p.Ala70Pro | missense variant | moderate | contig976 | 1083867 | C/G |
|
AAE1-3 | c.199A>G | p.Asn67Asp | missense variant | moderate | contig976 | 1083876 | T/C |
|
AAE1-3 | c.188A>G | p.Asn63Ser | missense variant | moderate | contig976 | 1083887 | T/C |
|
AAE1-3 | c.79A>G | p.Thr27Ala | missense variant | moderate | contig976 | 1083996 | T/C |
|
AAE1-3 | c.12G>A | p.Met4Ile | missense variant | moderate | contig976 | 1084063 | C/T |
|
AAE1-3 | c.11T>C | p.Met4Thr | missense variant | moderate | contig976 | 1084064 | A/G |
|
GGR | c.317C>T | p.Pro106Leu | missense variant | moderate | contig2282 | 549309 | 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.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)
- 0.235 R2in135 (SRR14708221)
- 0.236 KYRG-151 (RSP11052)
- 0.239 USO 31 (RSP10981)
- 0.239 Lovrin (RSP10658)
- 0.240 Santhica 27 (RSP10665)
- 0.240 R3in134 (SRR14708235)
- 0.240 Santhica27 (RSP10056)
- 0.242 USO 31 (RSP10983)
- 0.242 R2in135 (SRR14708236)
- 0.246 USO31 (RSP10233)
- 0.246 Tisza (RSP11044)
- 0.248 Futura 75 (RSP10664)
- 0.248 QHI (SRR14708202)
- 0.250 R3in134 (SRR14708220)
- 0.250 Fedora 17 (RSP10661)
- 0.250 Santhica27 (RSP11046)
- 0.251 IMA (SRR14708203)
- 0.252 VIR 507 - Krasnodarsky 10 FB (SRR14708229)
- 0.253 VIR 369 (SRR14708231)
- 0.254 Ferimon 12 (SRR14708233)
Nearest genetic relatives (Base Tree)
- 0.234 USO 31 (RSP10981)
- 0.237 Fedora 17 (RSP10661)
- 0.240 Lovrin (RSP10658)
- 0.241 Tygra (RSP10667)
- 0.242 Santhica27 (RSP11047)
- 0.244 Jiangji (RSP10653)
- 0.244 Monoica (RSP10241)
- 0.244 Futura 75 (RSP10664)
- 0.249 Tisza (RSP10659)
- 0.251 Tisza (RSP11044)
- 0.253 Kyrgyz Gold (RSP11054)
- 0.255 KYRG-11 (RSP11051)
- 0.257 Ivory (RSP10668)
- 0.271 Carmagnola (RSP10979)
- 0.285 Carmagnola (RSP11037)
- 0.296 Feral (RSP10890)
- 0.304 Hermaphrodite ResearchSample2 (RSP11050)
- 0.310 RKM-2018-029 (RSP11121)
- 0.310 Recon (RSP10755)
- 0.311 Kimbo Slice (RSP10997)
Most genetically distant strains (All Samples)
- 0.470 Cherry Blossom (RSP11318)
- 0.446 Cherry Blossom (RSP11323)
- 0.443 Chematonic -Cannatonic x Chemdawg- (RSP11394)
- 0.441 Cherry Blossom (RSP11300)
- 0.432 Cherry Blossom (RSP11312)
- 0.432 Cherry Blossom (RSP11328)
- 0.428 Cherry Blossom (RSP11301)
- 0.420 Unknown--Cherry Wine---001- (RSP11268)
- 0.419 Cherry Blossom (RSP11322)
- 0.415 Cherry Blossom (RSP11325)
- 0.415 Chem 91 (RSP11185)
- 0.412 Escape Velocity (RSP11165)
- 0.411 Cherry Blossom (RSP11311)
- 0.411 Cherry Blossom (RSP11331)
- 0.410 JL yellow (RSP11075)
- 0.409 Queen Dream CBG (RSP11287)
- 0.408 JL 3rd Gen Mother (RSP11214)
- 0.407 AVIDEKEL 2 0 (RSP11174)
- 0.407 Cherry Blossom (RSP11298)
- 0.406 JL Cross 13 (RSP11514)
Most genetically distant strains (Base Tree)
- 0.400 JL yellow (RSP11075)
- 0.387 RKM-2018-002 (RSP11093)
- 0.383 Cbot-2019-001 (RSP11129)
- 0.382 RKM-2018-006 (RSP11097)
- 0.381 RKM-2018-028 (RSP11120)
- 0.381 RKM-2018-018 (RSP11110)
- 0.379 Hermaphrodite Research Sample1 (RSP11049)
- 0.378 UP Sunrise (RSP10989)
- 0.369 RKM-2018-023 (RSP11115)
- 0.369 RKM-2018-027 (RSP11119)
- 0.369 Black Beauty (RSP11035)
- 0.367 Cbot-2019-005 (RSP11133)
- 0.365 Blue Dream (RSP11033)
- 0.365 RKM-2018-032 (RSP11124)
- 0.364 Kush Hemp E1 (RSP11128)
- 0.362 Cherry (RSP11143)
- 0.362 RKM-2018-009 (RSP11100)
- 0.359 Italian Kiss (RSP11034)
- 0.359 RKM-2018-022 (RSP11114)
- 0.356 Blueberry Cheesecake (RSP10672)
Nearest genetic relative in Phylos dataset
- Overlapping SNPs:
- 10
- Concordance:
- 10
Nearest genetic relative in Lynch dataset
- Overlapping SNPs:
- 5
- Concordance:
- 5