Table 2 Hypervariable regions on different chromosome of Brassica juncea
Chromosome | Hyper-variable region | No. of SNPs | Frequency of SNPs (per bp) | Predicted Protein | Protein Accession ID | BlastX e-value |
|---|---|---|---|---|---|---|
A01 | 12,089,878 to 12,089,908 | 4 | 7.50 | SMAX1-LIKE 2 [Brassica rapa] | XP_009127888.1 | 1.00E-148 |
13,064,396 to13064410 | 6 | 2.33 | Heptahelical transmembrane protein 2 [Brassica napus] | XP_013730768.1 | 2.00E-040 | |
23,525,876 to 23,525,886 | 4 | 2.50 | Farnesyl transferase/ geranylgeranyl transferase type-1 subunit alpha [Brassica rapa] | XP_009147222.1 | 2.00E-029 | |
37,133,315 to 37,133,336 | 5 | 4.20 | Uncharacterized protein LOC106335203 [Brassica oleracea] | XP_013629110.1 | 1.00E-042 | |
38,650,911 to 38,650,931 | 4 | 5.00 | Calcium-binding EF-hand family protein (Arabidopsis thaliana) | NP_001332476.1 | 6.00E-056 | |
A02 | 2,398,121 to 2398162 | 6 | 6.83 | No significant hit |  |  |
14,416,494 to 14,416,505 | 5 | 2.20 | Uncharacterized protein | RQM01316.1 | 3.00E-030 | |
A03 | 25,641,944 to 25,641,977 | 7 | 4.71 | Hypothetical protein DY000_00001393 [Brassica cretica] | RQL75529.1 | 1.00E-009 |
42,576,172 to 43,014,367 | 9 | 21.66 | Uncharacterized protein LOC106363406 [Brassica napus] | XP_013658605.1 | 3.00E-079 | |
A04 | 8,377,252 to 8,377,288 | 10 | 3.60 | Uncharacterized protein LOC106360747 [Brassica napus] | XP_013655857.1 | 3.00E-113 |
14,731,032 to 14,908,156 | 4 | 31.00 | Transcription factor MYC2 [Brassica rapa) | XP_009151447.1 | 8.00E-166 | |
A05 | 1,588,930 to 1,588,970 | 5 | 8.00 | Polygalacturonase-like [Brassica oleracea] | XP_013633855.1 | 4.00E-084 |
19,985,702 to 19,985,780 | 5 | 15.60 | BnaC08g47040D [Brassica napus] | CDY43697.1 | 8.00E-054 | |
21,938,359 to 21,938,393 | 6 | 5.66 | Probable LRR receptor-like serine/threonine-protein kinase At4g36180 [Brassica napus] | XP_013716480.1 | 5.00E-166 | |
27,265,183 to 27,265,231 | 5 | 9.60 | Hypothetical protein BRARA_K01418 [Brassica rapa] | RIA04352.1 | 1.00E-019 | |
35,529,249 to 35,529,274 | 5 | 5.00 | Cis-phytoenedesaturase, chloroplastic/chromoplastic [Brassica napus] | XP_013750375.2 | 9.00E-065 | |
A06 | 11,405,649 to 11,405,684 | 5 | 7.00 | BnaA06g16240D [Brassica napus] | CDY08102.1 | 4.00E-077 |
31,624,120 to 31,624,155 | 6 | 5.83 | Hypothetical protein RQL85806.1 | RQL85806.1 | 2.00E-097 | |
36,377,825 to 36,377,860 | 5 | 7.00 | Uncharacterized protein LOC106401547 [Brassica napus] | XP_022543736.1 | 5.00E-084 | |
A07 | 13,947,963 to 13,948,008 | 5 | 9.00 | Unnamed protein product (Brassica rapa) | VDC98355.1 | 2.00E-072 |
16,375,261 to 16,375,275 | 5 | 2.80 | Uncharacterized protein LOC103829921 [Brassica rapa] | XP_009103854.1 | 6.00E-034 | |
B01 | 24,425,289 to 24,425,343 | 10 | 5.40 | Uncharacterized abhydrolase domain-containing protein DDB_G0269086-like [Brassica rapa] | Â | 4.00E-090 |
33,418,235 to 33,418,261 | 5 | 5.20 | Unnamed protein product [Brassica rapa] | VDC90843.1 | 2.00E-094 | |
51,944,663 to 51944714 | 6 | 8.50 | Uncharacterized protein LOC106308810 [Brassica oleracea] | XP_013601383.1 | 4.00E-098 | |
53,225,827 to 53,225,840 | 5 | 2.60 | Homocysteine S-methyltransferase 2 [Brassica napus] | XP_013712093.1 | 1.00E-040 | |
53,650,933 to 53,650,972 | 5 | 7.80 | Hypothetical protein DY000_00003913 [Brassica cretica] | RQL77992.1 | 4.00E-076 | |
B02 | 6,040,643 to 6,040,712 | 11 | 6.27 | Unnamed protein product [Brassica rapa] | VDD17261.1 | 4.00E-004 |
14,431,647 to 14,431,685 | 5 | 7.60 | No significant hit | Â | Â | |
B04 | 18,482,342 to 18,482,397 | 4 | 13.75 | Uncharacterized protein At3g60930, chloroplastic-like [Brassica napus] | XP_022567433.1 | 7.00E-009 |
29,636,717 to 29,636,764 | 8 | 5.87 | BnaA02g16800D [Brassica napus] | CDY49126.1 | 8.00E-035 | |
46,447,876 to 46,447,889 | 6 | 2.16 | hypothetical protein DY000_00030648 [Brassica cretica] | RQM04119.1 | 4.00E-034 | |
52,254,291 to 52,254,327 | 5 | 7.20 | ras-related protein RABD2c isoform X1 [Brassica rapa] | XP_009130704.1 | 1.00E-154 | |
53,387,066 to 53,387,117 | 5 | 10.20 | uncharacterized mitochondrial protein AtMg00810-like [Brassica oleracea var. oleracea] | XP_013601341.1 | 2.00E-138 | |
B05 | 12,937,005 to 12,937,060 | 5 | 10.00 | hypothetical protein MANES_08G079400 [Manihot esculenta] | OAY43565.1 | 3.00E-014 |
68,021,640 to 68,021,664 | 7 | 3.42 | caffeic acid 3-O-methyltransferase-like [Raphanus sativus] | XP_018461242.1 | 4.00E-058 | |
80,717,492 to 80,717,516 | 7 | 3.43 | glutathione S-transferase T3-like [Brassica oleracea var. oleracea] | XP_013639324.1 | 3.00E-107 | |
B06 | 1,593,067 to 1,593,109 | 11 | 3.82 | BnaC04g03580D [Brassica napus] | CDY17861.1 | 8.00E-011 |
2,770,283 to 2,770,305 | 5 | 4.40 | uncharacterized acetyltransferase At3g50280 [Raphanus sativus] | XP_018434505.1 | 0 | |
B07 | 23,121,758 to 23121773 | 5 | 3.00 | uncharacterized protein LOC108830363 [Raphanus sativus] | XP_018459472.1 | 1.00E-150 |
B08 | 15,772,508 to 15,772,583 | 10 | 7.50 | probable LRR receptor-like serine/threonine-protein kinase At4g36180 isoform X1 [Raphanus sativus] | XP_018460684.1 | 2.00E-074 |
B09 | 29,343,310 to 29,343,368 | 8 | 7.25 | No significant hit | NA | NA |
32,306,181 to 32,306,211 | 6 | 5.00 | U-box domain-containing protein 9-like [Brassica napus] | XP_013684649.1 | 4.00E-055 | |
B10 | 63,679,073 to 63,679,088 | 6 | 2.50 | uncharacterized protein LOC106424516 [Brassica napus] | XP_013720737.1 | 1.00E-107 |
69,805,021 to 69,805,080 | 7 | 8.42 | uncharacterized protein LOC106361641 [Brassica napus] | XP_022549137.1 | 0 |