Carmagnola
SRR 14708200
General Information
- Sample Name
- ICA1
- 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 III
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.744C>G | p.Asp248Glu | missense variant | moderate | contig676 | 168993 | C/G |
|
GPPs1 |
c.845_848del |
p.Glu282fs | frameshift variant | high | contig676 | 169629 | TGAAA/T |
|
PHL-2 | c.44G>A | p.Arg15Lys | missense variant | moderate | contig2621 | 337613 | G/A | |
PHL-2 | c.1096G>A | p.Ala366Thr | missense variant | moderate | contig2621 | 340374 | G/A | |
PHL-2 | c.1837G>A | p.Glu613Lys | missense variant | moderate | contig2621 | 341115 | G/A |
|
PHL-2 | c.2497A>G | p.Lys833Glu | missense variant | moderate | contig2621 | 342540 | A/G |
|
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.2830A>C | p.Asn944His | missense variant | moderate | contig2621 | 342873 | A/C |
|
PHL-2 | c.2854C>T | p.Arg952Cys | missense variant | moderate | contig2621 | 342897 | C/T |
|
PHL-2 |
c.2905_2907d |
p.Asn969dup | conservative inframe insertion | moderate | contig2621 | 342946 | G/GCAA |
|
PHL-2 | c.2933G>T | p.Arg978Leu | missense variant | moderate | contig2621 | 342976 | G/T | |
PHL-2 | c.2936T>G | p.Val979Gly | missense variant | moderate | contig2621 | 342979 | T/G |
|
PHL-2 | c.3209A>G | p.Gln1070Arg | missense variant | moderate | contig2621 | 343252 | 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.323A>G | p.Glu108Gly | missense variant | moderate | contig700 | 2721350 | T/C |
|
PKSG-4b |
c.235_239dup |
p.Phe80fs | frameshift variant | high | contig700 | 2724195 | G/GAATCT |
|
PKSG-4b | c.134G>A | p.Arg45Gln | missense variant | moderate | contig700 | 2724301 | C/T |
|
PKSG-2a |
c.-22_2delTA |
p.Met1del | start lost & conservative inframe deletion | high | contig700 | 1945631 |
CATATTATTATT |
|
DXR-2 | c.1319T>C | p.Ile440Thr | missense variant | moderate | contig380 | 285250 | A/G |
|
ELF4 | c.144T>A | p.Asp48Glu | missense variant | moderate | contig869 | 622426 | A/T |
|
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.1366T>G | p.Leu456Val | missense variant | moderate | contig97 | 244197 | T/G |
|
ELF3 | c.1466G>A | p.Ser489Asn | missense variant | moderate | contig97 | 244297 | G/A |
|
ELF3 | c.1571C>T | p.Pro524Leu | missense variant | moderate | contig97 | 244402 | C/T |
|
ELF3 | c.1630A>G | p.Thr544Ala | missense variant | moderate | contig97 | 244461 | A/G | |
ELF3 |
c.1803_1805d |
p.His601del | disruptive inframe deletion | moderate | contig97 | 244625 | ACAT/A |
|
ELF3 | c.1966C>G | p.Pro656Ala | missense variant | moderate | contig97 | 244797 | C/G | |
aPT1 | c.160A>C | p.Thr54Pro | missense variant | moderate | contig121 | 2835867 | A/C | |
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 | |
aPT1 | c.864C>G | p.Asn288Lys | missense variant | moderate | contig121 | 2842407 | C/G | |
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.1090A>G | p.Lys364Glu | missense variant | moderate | contig81 | 210052 | A/G |
|
AAE1-2 | c.1102C>A | p.His368Asn | missense variant | moderate | contig81 | 210064 | C/A |
|
AAE1-2 | c.1115A>G | p.Glu372Gly | missense variant | moderate | contig81 | 210077 | A/G |
|
AAE1-2 | c.1118C>G | p.Thr373Ser | missense variant | moderate | contig81 | 210080 | C/G |
|
AAE1-2 | c.1177G>A | p.Asp393Asn | missense variant | moderate | contig81 | 210139 | G/A |
|
AAE1-2 | c.1417A>G | p.Thr473Ala | missense variant | moderate | contig81 | 210379 | A/G |
|
AAE1-2 | c.1520C>G | p.Thr507Ser | missense variant | moderate | contig81 | 210482 | C/G |
|
AAE1-2 | c.1541T>C | p.Val514Ala | missense variant | moderate | contig81 | 210503 | 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 | |
Edestin | c.16T>C | p.Ser6Pro | missense variant | moderate | contig850 | 3065274 | A/G |
|
PKSG-2b | c.1152T>A | p.Asn384Lys | missense variant | moderate | contig700 | 1950486 | A/T | |
PKSG-2b | c.1132C>G | p.Leu378Val | missense variant | moderate | contig700 | 1950506 | G/C |
|
PKSG-2b | c.1117A>G | p.Ile373Val | missense variant | moderate | contig700 | 1950521 | 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.592A>G | p.Asn198Asp | missense variant | moderate | contig700 | 1951046 | T/C |
|
PKSG-2b | c.588T>G | p.Asp196Glu | missense variant | moderate | contig700 | 1951050 | A/C |
|
PKSG-2b | c.560C>T | p.Thr187Met | missense variant | moderate | contig700 | 1951078 | G/A |
|
PKSG-2b | c.558G>A | p.Met186Ile | missense variant | moderate | contig700 | 1951080 | C/T |
|
HDS-1 | c.1496A>G | p.Asn499Ser | missense variant | moderate | contig1891 | 886141 | 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.56C>G | p.Ala19Gly | missense variant | moderate | contig1891 | 889336 | G/C | |
PIE1-2 | c.6817G>A | p.Glu2273Lys | missense variant | moderate | contig1460 | 1184270 | C/T |
|
PIE1-2 | c.6653A>G | p.Asn2218Ser | missense variant | moderate | contig1460 | 1184434 | T/C | |
PIE1-2 | c.5932A>G | p.Ile1978Val | missense variant | moderate | contig1460 | 1185552 | T/C | |
EMF2 |
c.1415_1416i |
p.His474fs | frameshift variant | high | contig954 | 3056602 | A/ATT |
|
EMF2 |
c.1418_1419i |
p.Ser473_His |
disruptive inframe insertion | moderate | contig954 | 3056605 | C/CACA | |
EMF2 |
c.1419_1420i |
p.His474fs | frameshift variant | high | contig954 | 3056606 | G/GT |
|
aPT4 | c.80A>G | p.Lys27Arg | missense variant | moderate | contig121 | 2828736 | A/G |
|
aPT4 | c.97T>C | p.Tyr33His | missense variant | moderate | contig121 | 2828753 | T/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.916C>T | p.His306Tyr | missense variant & splice region variant | moderate | contig121 | 2832711 | C/T |
|
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 |
|
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.637G>A | p.Ala213Thr | missense variant | moderate | contig2282 | 549629 | G/A |
|
GGR | c.704A>T | p.His235Leu | missense variant | moderate | contig2282 | 549696 | A/T |
|
GGR | c.810A>C | p.Glu270Asp | missense variant | moderate | contig2282 | 549802 | A/C |
|
PKSB-3 | c.1652A>G | p.Glu551Gly | missense variant | moderate | contig93 | 3339759 | A/G |
|
PKSB-3 | c.1848G>A | p.Met616Ile | missense variant | moderate | contig93 | 3339955 | G/A |
|
Nearest genetic relatives (All Samples)
- 0.135 B52 (SRR14708255)
- 0.164 Serious Happiness (RSP10763)
- 0.168 AOAC MI 535 (RSP11754)
- 0.169 PCL1 (SRR14708246)
- 0.171 Kompolti (SRR14708277)
- 0.181 R1in136 (SRR14708237)
- 0.183 Liberty Haze (RSP11000)
- 0.183 AOAC MI 599 (RSP11762)
- 0.185 Lift (RSP11378)
- 0.186 VIR 493, Glukhovskaja 10 Zheltostebel'naja (SRR14708230)
- 0.189 Durban Poison 1 (RSP11013)
- 0.189 AOAC MI 504 (RSP11749)
- 0.189 AOAC MI 597 (RSP11761)
- 0.190 Blue Dream (RSP11004)
- 0.190 Doug s Varin (RSP11243)
- 0.193 AOAC MI 567 (RSP11758)
- 0.193 Rest (RSP11377)
- 0.195 Uniko B (SRR14708278)
- 0.195 VIR 201 (SRR14708232)
- 0.196 Electra (RSP11366)
Nearest genetic relatives (Base Tree)
- 0.217 Liberty Haze (RSP11000)
- 0.221 Hermaphrodite ResearchSample2 (RSP11050)
- 0.246 Tisza (RSP11044)
- 0.250 Tygra (RSP10667)
- 0.254 Futura 75 (RSP10664)
- 0.255 Tisza (RSP10659)
- 0.257 Kyrgyz Gold (RSP11054)
- 0.260 UP Sunrise (RSP10989)
- 0.261 Carmagnola (RSP10979)
- 0.267 Carmagnola (RSP11037)
- 0.272 RKM-2018-020 (RSP11112)
- 0.273 Recon (RSP10755)
- 0.276 Monoica (RSP10241)
- 0.279 Santhica27 (RSP11047)
- 0.281 Golden Goat 2 (RSP10991)
- 0.282 RKM-2018-003 (RSP11094)
- 0.284 Kimbo Slice (RSP10997)
- 0.289 RKM-2018-033 (RSP11125)
- 0.293 USO 31 (RSP10981)
- 0.294 RKM-2018-032 (RSP11124)
Most genetically distant strains (All Samples)
- 0.409 80E (RSP11213)
- 0.407 Chem 91 (RSP11185)
- 0.400 Sour Tsunami x Cataract Ku (RSP11183)
- 0.397 JL yellow (RSP11075)
- 0.389 JL 2 (RSP11076)
- 0.385 Tanao Sri 46 (RSP11486)
- 0.383 Cherry Blossom (RSP11323)
- 0.377 Star Dawg (RSP11352)
- 0.375 IUP3 (SRR14708256)
- 0.375 Purple Strawberry AK47 1 1 (RSP11415)
- 0.374 JL 4th Gen 5 (RSP11199)
- 0.373 UP Sunset (RSP11256)
- 0.371 Blueberry Cheesecake (RSP10672)
- 0.368 JL 3rd Gen Mother (RSP11214)
- 0.365 Cherry Blossom (RSP11318)
- 0.365 Chematonic Cannatonic x Chemdawg (RSP11394)
- 0.362 RKM-2018-002 (RSP11093)
- 0.361 Tanao Sri-white 80 (RSP11621)
- 0.360 Sour Tsunami (RSP11187)
- 0.352 RKM-2018-012 (RSP11103)
Most genetically distant strains (Base Tree)
- 0.396 JL yellow (RSP11075)
- 0.372 Skywalker OG (RSP10837)
- 0.370 RKM-2018-002 (RSP11093)
- 0.367 Blueberry Cheesecake (RSP10672)
- 0.361 Ivory (RSP10668)
- 0.360 RKM-2018-026 (RSP11118)
- 0.349 Kush Hemp E1 (RSP11128)
- 0.347 Skunk 18 (RSP11038)
- 0.345 Durban Poison (RSP11014)
- 0.345 CST (RSP11002)
- 0.344 RKM-2018-006 (RSP11097)
- 0.337 Sour Raspberry (RSP10551)
- 0.336 Blueberry Cheesecake (RSP10680)
- 0.332 Cbot-2019-006 (RSP11134)
- 0.329 The Gift (RSP10988)
- 0.325 RKM-2018-031 (RSP11123)
- 0.324 RKM-2018-009 (RSP11100)
- 0.322 RKM-2018-018 (RSP11110)
- 0.321 Pie Hoe (RSP11073)
- 0.321 RKM-2018-005 (RSP11096)
Nearest genetic relative in Phylos dataset
- Overlapping SNPs:
- 13
- Concordance:
- 9
Nearest genetic relative in Lynch dataset
- Overlapping SNPs:
- 5
- Concordance:
- 5