VIR 469
SRR 14708241
General Information
- Sample Name
- KAK3
- 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.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.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.896A>G | p.Asn299Ser | missense variant | moderate | contig676 | 169772 | A/G |
|
PHL-2 | c.44G>A | p.Arg15Lys | missense variant | moderate | contig2621 | 337613 | 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.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.2830A>C | p.Asn944His | missense variant | moderate | contig2621 | 342873 | A/C |
|
PKSG-4b | c.496A>G | p.Lys166Glu | missense variant | moderate | contig700 | 2721177 | T/C | |
PKSG-4b | c.485A>G | p.Lys162Arg | missense variant | moderate | contig700 | 2721188 | T/C | |
PKSG-4b | c.431T>G | p.Val144Gly | missense variant | moderate | contig700 | 2721242 | A/C | |
PKSG-4b | c.419A>G | p.Asp140Gly | missense variant | moderate | contig700 | 2721254 | T/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 | |
DXR-2 | c.1319T>C | p.Ile440Thr | missense variant | moderate | contig380 | 285250 | A/G |
|
DXR-2 | c.431C>G | p.Ala144Gly | missense variant | moderate | contig380 | 287760 | G/C | |
ELF3 | c.305G>A | p.Arg102His | missense variant | moderate | contig97 | 242011 | G/A |
|
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.1982A>C | p.Asn661Thr | missense variant | moderate | contig97 | 244813 | A/C |
|
ELF3 | c.2198G>T | p.Arg733Leu | missense variant | moderate | contig97 | 245029 | G/T | |
ELF5 | c.520A>G | p.Thr174Ala | missense variant | moderate | contig382 | 880382 | A/G | |
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 | |
aPT1 | c.629C>T | p.Thr210Ile | missense variant | moderate | contig121 | 2840237 | C/T | |
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.22G>A | p.Val8Ile | missense variant | moderate | contig931 | 118442 | C/T |
|
HDS-2 | c.127T>G | p.Ser43Ala | missense variant | moderate | contig95 | 1989794 | T/G |
|
AAE1-2 | c.205T>A | p.Ser69Thr | missense variant | moderate | contig81 | 209167 | T/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 |
|
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 | |
PHL-1 | c.176G>A | p.Gly59Glu | missense variant | moderate | contig1439 | 1492817 | C/T |
|
PHL-1 | c.175G>A | p.Gly59Arg | missense variant | moderate | contig1439 | 1492818 | C/T | |
PKSG-2b | c.948T>G | p.Asp316Glu | missense variant | moderate | contig700 | 1950690 | A/C |
|
TFL1 | c.304G>A | p.Asp102Asn | missense variant & splice region variant | moderate | contig1636 | 520613 | C/T |
|
TFL1 | c.302-1G>A | splice acceptor variant & intron variant | high | contig1636 | 520616 | C/T | ||
HDS-1 | c.1381G>A | p.Asp461Asn | missense variant | moderate | contig1891 | 886367 | C/T |
|
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 | |
HDS-1 | c.35G>A | p.Cys12Tyr | missense variant | moderate | contig1891 | 889357 | C/T | |
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.1289A>G | p.Asp430Gly | missense variant | moderate | contig1460 | 1192109 | 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.434C>T | p.Ser145Phe | missense variant | moderate | contig954 | 3049270 | C/T | |
EMF2 | c.1772A>G | p.Gln591Arg | missense variant | moderate | contig954 | 3059929 | A/G | |
FT |
c.125_126dup |
p.Gly43fs | frameshift variant | high | contig1561 | 3124547 | T/TTA |
|
FT | c.175C>G | p.Leu59Val | missense variant | moderate | contig1561 | 3124599 | C/G |
|
FT | c.194A>T | p.His65Leu | missense variant | moderate | contig1561 | 3124618 | A/T |
|
FT | c.196A>G | p.Ile66Val | missense variant | moderate | contig1561 | 3124620 | 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 |
|
FLD | c.2681T>C | p.Ile894Thr | missense variant | moderate | contig1450 | 2044853 | A/G | |
AAE1-3 | c.667G>A | p.Val223Ile | missense variant | moderate | contig976 | 1083187 | C/T |
|
AAE1-3 | c.475G>A | p.Gly159Arg | missense variant | moderate | contig976 | 1083550 | C/T |
|
AAE1-3 | c.416T>C | p.Leu139Pro | missense variant | moderate | contig976 | 1083609 | A/G |
|
AAE1-3 | c.296C>T | p.Pro99Leu | missense variant | moderate | contig976 | 1083729 | G/A |
|
AAE1-3 | c.293A>G | p.Asp98Gly | missense variant | moderate | contig976 | 1083732 | T/C |
|
AAE1-3 | c.181G>A | p.Val61Ile | missense variant | moderate | contig976 | 1083894 | C/T |
|
AAE1-3 | c.167A>G | p.Glu56Gly | missense variant | moderate | contig976 | 1083908 | T/C |
|
AAE1-3 | c.125A>G | p.Glu42Gly | missense variant | moderate | contig976 | 1083950 | T/C |
|
AAE1-3 | c.79A>G | p.Thr27Ala | missense variant | moderate | contig976 | 1083996 | T/C |
|
AAE1-3 | c.52G>A | p.Gly18Ser | missense variant | moderate | contig976 | 1084023 | C/T |
|
AAE1-3 | c.3G>A | p.Met1? | start lost | high | contig976 | 1084072 | 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.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.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.1880_1891d |
p.His627_Gly |
disruptive inframe deletion | moderate | contig93 | 3339981 |
CTGGCCATGGCC |
|
Nearest genetic relatives (All Samples)
- 0.110 VIR 469 (SRR14708243)
- 0.197 Blue Dream (RSP11007)
- 0.202 Carmagnola (RSP11039)
- 0.207 VIR 37, Novgorod-Seversky, cv (SRR14708234)
- 0.212 R1in136 (SRR14708237)
- 0.218 Lift (RSP11378)
- 0.225 Carmagnola (RSP10982)
- 0.225 VIR 201 (SRR14708232)
- 0.225 AOAC MI 533 (RSP11753)
- 0.225 AOAC MI 535 (RSP11754)
- 0.226 Blue Dream (RSP11004)
- 0.227 Futura 75 (RSP10664)
- 0.227 AOAC MI 504 (RSP11749)
- 0.229 VIR 469 (SRR14708242)
- 0.229 AOAC MI 508 (RSP11750)
- 0.229 Tygra (RSP10667)
- 0.229 AOAC MI 545 (RSP11756)
- 0.230 B52 (SRR14708255)
- 0.233 Super Blue Dream (RSP11011)
- 0.234 Tak-HN (RSP11618)
Nearest genetic relatives (Base Tree)
- 0.234 Futura 75 (RSP10664)
- 0.237 Tygra (RSP10667)
- 0.250 Tisza (RSP11044)
- 0.254 Blueberry Cheesecake (RSP10684)
- 0.255 Golden Goat 2 (RSP10991)
- 0.264 KYRG-11 (RSP11051)
- 0.269 Carmagnola (RSP11037)
- 0.269 Tisza (RSP10659)
- 0.291 Liberty Haze (RSP11000)
- 0.293 Jiangji (RSP10653)
- 0.293 RKM-2018-018 (RSP11110)
- 0.295 RKM-2018-020 (RSP11112)
- 0.295 Fedora 17 (RSP10661)
- 0.298 Blue Dream (RSP11033)
- 0.300 Durban Poison (RSP11014)
- 0.303 Lovrin (RSP10658)
- 0.306 RKM-2018-005 (RSP11096)
- 0.307 Italian Kiss (RSP11034)
- 0.309 USO 31 (RSP10981)
- 0.313 RKM-2018-029 (RSP11121)
Most genetically distant strains (All Samples)
- 0.434 JL 4th Gen 5 (RSP11199)
- 0.431 80E (RSP11213)
- 0.425 JL yellow (RSP11075)
- 0.423 JL 3rd Gen Mother (RSP11197)
- 0.421 JL 4th Gen 6 (RSP11200)
- 0.417 Cbot-2019-005 (RSP11133)
- 0.417 Herijuana (RSP11181)
- 0.411 JL 4th Gen 4 (RSP11198)
- 0.405 Kush Hemp E1 (RSP11128)
- 0.402 Red Eye OG (RSP11190)
- 0.398 RKM-2018-002 (RSP11093)
- 0.398 AVIDEKEL 2 0 (RSP11174)
- 0.398 Cherry Blossom (RSP11323)
- 0.397 Sour Tsunami (RSP11187)
- 0.395 Cbot-2019-004 (RSP11132)
- 0.394 Right Mark (RSP11628)
- 0.392 Skunk 18 (RSP11038)
- 0.390 Northern Lights (RSP11501)
- 0.390 Skywalker OG (RSP10837)
- 0.390 Danny Noonan (RSP11070)
Most genetically distant strains (Base Tree)
- 0.433 JL yellow (RSP11075)
- 0.398 Cbot-2019-005 (RSP11133)
- 0.398 RKM-2018-002 (RSP11093)
- 0.383 RKM-2018-009 (RSP11100)
- 0.382 Kush Hemp E1 (RSP11128)
- 0.379 Cbot-2019-004 (RSP11132)
- 0.376 RKM-2018-026 (RSP11118)
- 0.373 RKM-2018-033 (RSP11125)
- 0.372 Sour Raspberry (RSP10551)
- 0.370 Skunk 18 (RSP11038)
- 0.366 Blueberry Cheesecake (RSP10680)
- 0.359 RKM-2018-023 (RSP11115)
- 0.359 Black Beauty (RSP11035)
- 0.356 Cbot-2019-006 (RSP11134)
- 0.352 Skywalker OG (RSP10837)
- 0.351 Blueberry Cheesecake (RSP10672)
- 0.350 RKM-2018-034 (RSP11126)
- 0.350 RKM-2018-019 (RSP11111)
- 0.346 RKM-2018-022 (RSP11114)
- 0.343 Pie Hoe (RSP11073)
Nearest genetic relative in Phylos dataset
- Overlapping SNPs:
- 17
- Concordance:
- 12
Nearest genetic relative in Lynch dataset
- Overlapping SNPs:
- 3
- Concordance:
- 3