Northern Light

SRR 14708265

Grower: Lanzhou University, Guangpeng Ren

General Information

Sample Name
NLT
Accession Date
May 31, 2021
Reported Plant Sex
not reported

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.

Rarity: Common
Most Distant Most Similar

Chemical Information

Cannabinoid and terpenoid information provided by the grower.

Cannabinoids

No information provided.

Terpenoids

No information provided.

Genetic Information

Plant Type
Type I

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.

Heterozygosity: 1.18%
Least Heterozygous Most Heterozygous

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.

Y-Ratio Distribution: 0.0199
male female SRR14708265

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).

Bt/Bd Allele Coverage

This chart represents the Illumina sequence coverage over the CBCA synthase gene.

CBCAS Coverage

Variants (THCAS, CBDAS, and CBCAS)

No variants to report

Variants (Select Genes of Interest)

GPPs1

UniProt

c.845_848delAAAG p.Glu282fs frameshift variant high contig676 169629

IGV: Start, Jump

TGAAA/T
NGS:
0.118
C90:
0.000
GPPs1

UniProt

c.896A>G p.Asn299Ser missense variant moderate contig676 169772

IGV: Start, Jump

A/G
NGS:
0.046
C90:
0.000
PKSG-4b

UniProt

c.496A>G p.Lys166Glu missense variant moderate contig700 2721177

IGV: Start, Jump

T/C
NGS:
0.651
C90:
0.684
PKSG-4b

UniProt

c.489delT p.Phe163fs frameshift variant high contig700 2721183

IGV: Start, Jump

CA/C
NGS:
0.792
C90:
0.761
PKSG-4b

UniProt

c.485A>G p.Lys162Arg missense variant moderate contig700 2721188

IGV: Start, Jump

T/C
NGS:
0.643
C90:
0.301
PKSG-4b

UniProt

c.419A>G p.Asp140Gly missense variant moderate contig700 2721254

IGV: Start, Jump

T/C
NGS:
0.430
C90:
0.440
PKSG-4b

UniProt

c.352_355delACAG p.Thr118fs frameshift variant high contig700 2721317

IGV: Start, Jump

CCTGT/C
NGS:
0.529
C90:
0.000
PKSG-2a

UniProt

c.67T>A p.Phe23Ile missense variant moderate contig700 1945567

IGV: Start, Jump

A/T
NGS:
0.825
C90:
0.904
PKSG-2a

UniProt

c.31A>T p.Thr11Ser missense variant moderate contig700 1945603

IGV: Start, Jump

T/A
NGS:
0.763
C90:
0.876
FAD2-2

UniProt

c.311C>A p.Ala104Asp missense variant moderate contig83 1803058

IGV: Start, Jump

G/T
NGS:
0.000
C90:
0.000
FAD2-2

UniProt

c.303G>T p.Trp101Cys missense variant moderate contig83 1803066

IGV: Start, Jump

C/A
NGS:
0.000
C90:
0.000
FAD2-2

UniProt

c.248C>G p.Pro83Arg missense variant moderate contig83 1803121

IGV: Start, Jump

G/C
NGS:
0.004
C90:
0.000
ELF3

UniProt

c.358G>A p.Gly120Arg missense variant moderate contig97 242064

IGV: Start, Jump

G/A
NGS:
0.099
C90:
0.493
ELF3

UniProt

c.772A>G p.Ser258Gly missense variant moderate contig97 242478

IGV: Start, Jump

A/G
NGS:
0.112
C90:
0.000
ELF3

UniProt

c.812G>C p.Gly271Ala missense variant moderate contig97 242518

IGV: Start, Jump

G/C
NGS:
0.114
C90:
0.938
ELF3

UniProt

c.1630A>G p.Thr544Ala missense variant moderate contig97 244461

IGV: Start, Jump

A/G
NGS:
0.103
C90:
0.545
ELF3

UniProt

c.2198G>T p.Arg733Leu missense variant moderate contig97 245029

IGV: Start, Jump

G/T
NGS:
0.125
C90:
0.531
aPT1

UniProt

c.629C>T p.Thr210Ile missense variant moderate contig121 2840237

IGV: Start, Jump

C/T
NGS:
0.561
C90:
0.598
AAE1-2

UniProt

c.331A>G p.Asn111Asp missense variant moderate contig81 209293

IGV: Start, Jump

A/G
NGS:
0.123
C90:
0.000
AAE1-2

UniProt

c.688G>A p.Asp230Asn missense variant moderate contig81 209650

IGV: Start, Jump

G/A
NGS:
0.018
C90:
0.000
AAE1-2

UniProt

c.948_949insA p.Asp317fs frameshift variant high contig81 209910

IGV: Start, Jump

C/CA
NGS:
0.050
C90:
0.000
AAE1-2

UniProt

c.952delC p.Gln318fs frameshift variant high contig81 209912

IGV: Start, Jump

AC/A
NGS:
0.050
C90:
0.000
AAE1-2

UniProt

c.953A>G p.Gln318Arg missense variant moderate contig81 209915

IGV: Start, Jump

A/G
NGS:
0.050
C90:
0.000
AAE1-2

UniProt

c.955C>T p.Arg319Cys missense variant moderate contig81 209917

IGV: Start, Jump

C/T
NGS:
0.050
C90:
0.000
PKSG-2b

UniProt

c.1152T>A p.Asn384Lys missense variant moderate contig700 1950486

IGV: Start, Jump

A/T
NGS:
0.715
C90:
0.895
PKSG-2b

UniProt

c.1132C>G p.Leu378Val missense variant moderate contig700 1950506

IGV: Start, Jump

G/C
NGS:
0.717
C90:
0.000
PKSG-2b

UniProt

c.1117A>G p.Ile373Val missense variant moderate contig700 1950521

IGV: Start, Jump

T/C
NGS:
0.807
C90:
0.981
PKSG-2b

UniProt

c.948T>G p.Asp316Glu missense variant moderate contig700 1950690

IGV: Start, Jump

A/C
NGS:
0.456
C90:
0.000
PKSG-2b

UniProt

c.945T>G p.Ser315Arg missense variant moderate contig700 1950693

IGV: Start, Jump

A/C
NGS:
0.454
C90:
0.000
PKSG-2b

UniProt

c.944G>A p.Ser315Asn missense variant moderate contig700 1950694

IGV: Start, Jump

C/T
NGS:
0.445
C90:
0.000
PKSG-2b

UniProt

c.31A>T p.Thr11Ser missense variant moderate contig700 1951851

IGV: Start, Jump

T/A
NGS:
0.844
C90:
0.880
HDS-1

UniProt

c.1618A>G p.Ile540Val missense variant moderate contig1891 885936

IGV: Start, Jump

T/C
NGS:
0.099
C90:
0.861
HDS-1

UniProt

c.56C>G p.Ala19Gly missense variant moderate contig1891 889336

IGV: Start, Jump

G/C
NGS:
0.125
C90:
0.943
HDS-1

UniProt

c.-108+1_-108+2insG splice donor variant & intron variant high contig1891 889975

IGV: Start, Jump

A/AC
NGS:
0.217
C90:
0.000
PIE1-2

UniProt

c.1156T>G p.Trp386Gly missense variant moderate contig1460 1192242

IGV: Start, Jump

A/C
NGS:
0.009
C90:
0.976
EMF2

UniProt

c.1772A>G p.Gln591Arg missense variant moderate contig954 3059929

IGV: Start, Jump

A/G
NGS:
0.092
C90:
0.876
FT

UniProt

c.13C>G p.Leu5Val missense variant moderate contig1561 3124437

IGV: Start, Jump

C/G
NGS:
0.031
C90:
0.153
FT

UniProt

c.240C>G p.Asn80Lys missense variant moderate contig1561 3124664

IGV: Start, Jump

C/G
NGS:
0.075
C90:
0.000
FT

UniProt

c.259+1G>C splice donor variant & intron variant high contig1561 3124684

IGV: Start, Jump

G/C
NGS:
0.000
C90:
0.000
FT

UniProt

c.421_422dupTA p.Leu142fs frameshift variant high contig1561 3126659

IGV: Start, Jump

C/CTA
NGS:
0.000
C90:
0.000
aPT4

UniProt

c.97T>C p.Tyr33His missense variant moderate contig121 2828753

IGV: Start, Jump

T/C
NGS:
0.439
C90:
0.000
aPT4

UniProt

c.775delT p.Tyr259fs frameshift variant high contig121 2831380

IGV: Start, Jump

AT/A
NGS:
0.224
C90:
0.000
AAE1-3

UniProt

c.659G>A p.Arg220Gln missense variant moderate contig976 1083195

IGV: Start, Jump

C/T
NGS:
0.077
C90:
0.000
AAE1-3

UniProt

c.634G>C p.Gly212Arg missense variant moderate contig976 1083220

IGV: Start, Jump

C/G
NGS:
0.116
C90:
0.000
GGR

UniProt

c.317C>T p.Pro106Leu missense variant moderate contig2282 549309

IGV: Start, Jump

C/T
NGS:
0.035
C90:
0.220
GGR

UniProt

c.704A>T p.His235Leu missense variant moderate contig2282 549696

IGV: Start, Jump

A/T
NGS:
0.121
C90:
0.000
PKSB-3

UniProt

c.1652A>G p.Glu551Gly missense variant moderate contig93 3339759

IGV: Start, Jump

A/G
NGS:
0.088
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.042 0.083 0.125 0.167
clone distance sibling distance more distant
  1. 0.094 B52 (SRR14708255)
  2. 0.118 AOAC MI 504 (RSP11749)
  3. 0.121 Miss X (RSP10999)
  4. 0.122 AOAC MI 597 (RSP11761)
  5. 0.125 Blue Dream (RSP11007)
  6. 0.125 AOAC MI 535 (RSP11754)
  7. 0.127 Durban Poison 1 (RSP10996)
  8. 0.129 Lift (RSP11378)
  9. 0.129 AOAC MI 533 (RSP11753)
  10. 0.132 AOAC MI 569 (RSP11759)
  11. 0.132 AOAC MI 599 (RSP11762)
  12. 0.132 AOAC MI 545 (RSP11756)
  13. 0.133 Blue Dream (RSP11017)
  14. 0.135 AOAC MI 532 (RSP11752)
  15. 0.135 AOAC MI 588 (RSP11760)
  16. 0.136 Doug s Varin (RSP11243)
  17. 0.137 AOAC MI 548 (RSP11757)
  18. 0.138 AOAC MI 508 (RSP11750)
  19. 0.138 AOAC MI 567 (RSP11758)
  20. 0.139 AOAC MI 501 (RSP11748)

Nearest genetic relatives (Base Tree)

0 0.067 0.133 0.200 0.267
clone distance sibling distance more distant
  1. 0.138 UP Sunrise (RSP10989)
  2. 0.140 Liberty Haze (RSP11000)
  3. 0.201 Tisza (RSP10659)
  4. 0.207 Recon (RSP10755)
  5. 0.211 The Gift (RSP10988)
  6. 0.226 Gold Cracker (RSP11048)
  7. 0.229 Hermaphrodite Research Sample1 (RSP11049)
  8. 0.237 Blueberry Cheesecake (RSP10680)
  9. 0.239 Blueberry Cheesecake (RSP10684)
  10. 0.241 KYRG-11 (RSP11051)
  11. 0.244 Kimbo Slice (RSP10997)
  12. 0.250 CST (RSP11002)
  13. 0.250 RKM-2018-009 (RSP11100)
  14. 0.252 Italian Kiss (RSP11034)
  15. 0.259 RKM-2018-031 (RSP11123)
  16. 0.260 Golden Goat 2 (RSP10991)
  17. 0.260 Pie Hoe (RSP11073)
  18. 0.260 Hermaphrodite ResearchSample2 (RSP11050)
  19. 0.261 Jiangji (RSP10653)
  20. 0.261 RKM-2018-023 (RSP11115)

Most genetically distant strains (All Samples)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.407 JL 4th Gen 5 (RSP11199)
  2. 0.394 JL yellow (RSP11075)
  3. 0.384 Danny Noonan (RSP11070)
  4. 0.379 Feral (RSP11205)
  5. 0.378 Cherry Blossom (RSP11323)
  6. 0.370 JL 3rd Gen Mother (RSP11197)
  7. 0.363 80E (RSP11213)
  8. 0.361 Northern Lights (RSP11501)
  9. 0.354 JL 3rd Gen Mother (RSP11214)
  10. 0.353 Kush Hemp E1 (RSP11128)
  11. 0.352 Feral (RSP10891)
  12. 0.350 IUP3 (SRR14708256)
  13. 0.347 CS (RSP11208)
  14. 0.345 R3in134 (SRR14708220)
  15. 0.343 Santhica27 (RSP10056)
  16. 0.342 80E (RSP11212)
  17. 0.342 Tanao Sri-white 80 (RSP11621)
  18. 0.341 JL 4th Gen 1 (RSP11193)
  19. 0.341 80E (RSP11211)
  20. 0.341 JL 3rd Gen Father (RSP11196)

Most genetically distant strains (Base Tree)

0 0.108 0.217 0.325 0.433
clone distance sibling distance more distant
  1. 0.401 JL yellow (RSP11075)
  2. 0.387 Carmagnola (RSP10979)
  3. 0.365 Kush Hemp E1 (RSP11128)
  4. 0.358 Monoica (RSP10241)
  5. 0.354 Cbot-2019-005 (RSP11133)
  6. 0.352 Fedora 17 (RSP10661)
  7. 0.349 Skywalker OG (RSP10837)
  8. 0.344 Cbot-2019-004 (RSP11132)
  9. 0.338 Ivory (RSP10668)
  10. 0.328 Santhica27 (RSP11047)
  11. 0.326 USO 31 (RSP10981)
  12. 0.321 RKM-2018-028 (RSP11120)
  13. 0.321 RKM-2018-003 (RSP11094)
  14. 0.318 RKM-2018-026 (RSP11118)
  15. 0.318 RKM-2018-020 (RSP11112)
  16. 0.318 RKM-2018-002 (RSP11093)
  17. 0.312 Carmagnola (RSP11037)
  18. 0.311 RKM-2018-034 (RSP11126)
  19. 0.302 Black Beauty (RSP11035)
  20. 0.301 RKM-2018-033 (RSP11125)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4448354
Overlapping SNPs:
11
Concordance:
10

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495169
Overlapping SNPs:
4
Concordance:
4
QR code for SRR14708265

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