AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene02545


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene02545.t1 MTR_3g088655 97.484 159 4 0 1 159 1 159 1.03e-107 304
MS.gene02545.t1 MTR_1g030440 62.420 157 51 3 1 157 15 163 3.13e-56 174
MS.gene02545.t1 MTR_7g074240 34.568 162 94 4 4 159 20 175 1.69e-21 85.9
MS.gene02545.t1 MTR_8g036075 37.736 159 79 6 6 156 47 193 3.13e-18 77.8
MS.gene02545.t1 MTR_4g067270 33.121 157 83 3 4 154 1 141 1.07e-17 75.5
MS.gene02545.t1 MTR_5g017510 31.818 154 81 5 8 155 48 183 5.11e-17 74.3
MS.gene02545.t1 MTR_5g017560 31.818 154 81 5 8 155 48 183 5.11e-17 74.3
MS.gene02545.t1 MTR_3g067610 31.847 157 79 5 4 154 1 135 1.05e-16 72.4
MS.gene02545.t1 MTR_7g089760 33.962 159 79 4 4 154 1 141 4.61e-16 71.2
MS.gene02545.t1 MTR_8g105230 33.562 146 85 4 6 151 34 167 5.39e-16 72.0
MS.gene02545.t1 MTR_1g032070 34.459 148 85 4 8 155 46 181 6.50e-16 71.6
MS.gene02545.t1 MTR_1g046950 32.895 152 80 5 9 154 5 140 5.26e-15 68.2
MS.gene02545.t1 MTR_4g115170 34.615 156 90 3 8 154 64 216 5.46e-15 69.7
MS.gene02545.t1 MTR_5g092810 33.784 148 80 4 9 154 398 529 5.48e-15 71.6
MS.gene02545.t1 MTR_5g017550 29.605 152 86 4 8 155 48 182 5.94e-15 68.9
MS.gene02545.t1 MTR_3g083470 30.263 152 84 4 7 158 92 221 8.82e-15 69.3
MS.gene02545.t1 MTR_4g103630 32.667 150 88 4 5 154 3 139 9.51e-15 67.4
MS.gene02545.t1 MTR_6g079570 31.973 147 88 3 8 154 26 160 1.22e-14 67.8
MS.gene02545.t1 MTR_7g075040 33.553 152 92 5 6 154 45 190 3.72e-14 67.0
MS.gene02545.t1 MTR_4g132070 33.108 148 81 4 9 154 397 528 6.89e-14 68.6
MS.gene02545.t1 MTR_4g103655 32.667 150 88 4 5 154 3 139 9.49e-14 64.7
MS.gene02545.t1 MTR_4g103650 32.653 147 86 4 8 154 2 135 1.05e-13 64.7
MS.gene02545.t1 MTR_1g076650 29.605 152 89 3 7 155 11 147 1.32e-13 64.7
MS.gene02545.t1 MTR_1g047100 29.252 147 93 3 8 154 4 139 1.59e-13 64.3
MS.gene02545.t1 MTR_1g041285 33.099 142 77 5 17 155 21 147 2.43e-13 63.9
MS.gene02545.t1 MTR_5g079340 33.333 153 77 6 8 154 4 137 2.43e-13 63.5
MS.gene02545.t1 MTR_3g051770 32.895 152 83 4 9 154 389 527 3.90e-13 66.2
MS.gene02545.t1 MTR_1g026190 30.137 146 88 3 9 154 388 519 1.81e-12 64.3
MS.gene02545.t1 MTR_8g107110 32.026 153 79 5 8 154 24 157 2.01e-12 62.0
MS.gene02545.t1 MTR_2g098890 34.395 157 83 3 4 154 60 202 2.29e-12 62.4
MS.gene02545.t1 MTR_1g055255 30.201 149 83 3 9 154 430 560 4.07e-12 63.2
MS.gene02545.t1 MTR_8g099095 31.507 146 86 4 9 154 372 503 5.64e-12 62.8
MS.gene02545.t1 MTR_1g096490 33.557 149 78 4 9 154 336 466 8.30e-12 62.4
MS.gene02545.t1 MTR_1g071150 27.891 147 81 4 16 156 20 147 8.32e-12 59.7
MS.gene02545.t1 MTR_5g088320 26.316 152 94 3 7 155 11 147 1.14e-11 59.7
MS.gene02545.t1 MTR_6g025320 26.316 152 94 3 7 155 11 147 1.17e-11 59.3
MS.gene02545.t1 MTR_7g087610 26.316 152 94 3 7 155 11 147 1.54e-11 59.3
MS.gene02545.t1 MTR_6g023460 32.258 155 80 5 7 155 7 142 2.80e-11 58.2
MS.gene02545.t1 MTR_8g066630 30.065 153 96 4 7 159 16 157 3.00e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene02545.t1 AT1G21550 42.581 155 83 3 2 155 4 153 3.36e-35 120
MS.gene02545.t1 AT4G20780 40.123 162 83 3 4 154 25 183 8.19e-26 97.4
MS.gene02545.t1 AT5G44460 38.037 163 87 4 4 159 24 179 7.41e-23 89.7
MS.gene02545.t1 AT1G66400 35.000 160 82 5 5 158 12 155 1.23e-20 83.2
MS.gene02545.t1 AT1G24620 36.364 154 80 5 8 158 37 175 3.03e-19 80.5
MS.gene02545.t1 AT2G43290 32.468 154 93 2 4 154 61 206 2.61e-18 78.6
MS.gene02545.t1 AT3G59440 34.615 156 79 3 5 154 48 186 4.24e-17 74.7
MS.gene02545.t1 AT1G05990 33.121 157 84 3 4 154 1 142 6.24e-17 73.6
MS.gene02545.t1 AT5G37770 33.121 157 83 4 5 154 14 155 4.49e-16 71.2
MS.gene02545.t1 AT5G37770 33.121 157 83 4 5 154 14 155 4.49e-16 71.2
MS.gene02545.t1 AT4G03290 33.121 157 86 3 4 154 1 144 3.90e-15 68.9
MS.gene02545.t1 AT4G04710 33.784 148 80 4 9 154 351 482 8.67e-15 70.9
MS.gene02545.t1 AT4G04710 33.784 148 80 4 9 154 338 469 1.08e-14 70.9
MS.gene02545.t1 AT3G51850 33.758 157 71 5 8 154 359 492 1.10e-14 70.9
MS.gene02545.t1 AT4G04710 33.784 148 80 4 9 154 324 455 1.14e-14 70.5
MS.gene02545.t1 AT4G04740 32.877 146 84 3 9 154 374 505 1.31e-14 70.5
MS.gene02545.t1 AT4G04740 32.877 146 84 3 9 154 374 505 1.31e-14 70.5
MS.gene02545.t1 AT4G04740 32.877 146 84 3 9 154 374 505 1.31e-14 70.5
MS.gene02545.t1 AT4G04740 32.877 146 84 3 9 154 374 505 1.31e-14 70.5
MS.gene02545.t1 AT4G04740 32.877 146 84 3 9 154 374 505 1.31e-14 70.5
MS.gene02545.t1 AT4G04740 32.877 146 84 3 9 154 374 505 1.31e-14 70.5
MS.gene02545.t1 AT1G76640 32.680 153 81 4 8 154 22 158 1.90e-14 67.0
MS.gene02545.t1 AT4G04720 34.247 146 82 4 9 154 385 516 2.06e-14 70.1
MS.gene02545.t1 AT4G04720 34.247 146 82 4 9 154 385 516 2.06e-14 70.1
MS.gene02545.t1 AT3G51920 30.137 146 84 4 16 158 20 150 2.12e-14 66.6
MS.gene02545.t1 AT5G17470 30.405 148 89 5 9 154 3 138 7.32e-14 65.5
MS.gene02545.t1 AT3G07490 33.758 157 82 3 4 154 1 141 8.20e-14 65.5
MS.gene02545.t1 AT1G32250 31.293 147 95 2 8 154 16 156 1.72e-13 64.7
MS.gene02545.t1 AT4G04710 34.000 150 79 5 9 154 351 484 2.08e-13 67.0
MS.gene02545.t1 AT1G73630 31.613 155 88 5 2 154 12 150 2.11e-13 64.3
MS.gene02545.t1 AT4G04695 33.784 148 80 4 9 154 337 468 4.21e-13 66.2
MS.gene02545.t1 AT4G04700 34.932 146 81 4 9 154 337 468 6.19e-13 65.9
MS.gene02545.t1 AT4G12860 29.221 154 93 2 4 154 1 141 6.97e-13 62.8
MS.gene02545.t1 AT1G35670 30.921 152 78 4 9 154 332 462 9.24e-13 65.1
MS.gene02545.t1 AT4G21940 32.192 146 85 4 9 154 407 538 1.49e-12 64.7
MS.gene02545.t1 AT4G21940 32.192 146 85 4 9 154 407 538 1.52e-12 64.7
MS.gene02545.t1 AT5G42380 32.450 151 91 4 4 154 45 184 2.53e-12 62.0
MS.gene02545.t1 AT4G23650 32.192 146 85 4 9 154 384 515 3.54e-12 63.5
MS.gene02545.t1 AT5G37780 26.316 152 94 3 7 155 11 147 4.64e-12 60.5
MS.gene02545.t1 AT1G66410 26.316 152 94 3 7 155 11 147 4.64e-12 60.5
MS.gene02545.t1 AT5G21274 26.974 152 93 3 7 155 11 147 4.89e-12 60.5
MS.gene02545.t1 AT4G14640 28.188 149 95 2 7 155 12 148 5.08e-12 60.5
MS.gene02545.t1 AT1G18530 29.139 151 97 2 9 159 8 148 5.57e-12 60.5
MS.gene02545.t1 AT2G36180 29.032 155 83 5 9 154 1 137 6.89e-12 60.1
MS.gene02545.t1 AT4G09570 31.579 152 77 4 9 154 331 461 7.83e-12 62.4
MS.gene02545.t1 AT3G47480 41.096 73 41 2 83 154 107 178 1.14e-11 60.1
MS.gene02545.t1 AT3G43810 26.316 152 94 3 7 155 11 147 1.23e-11 59.3
MS.gene02545.t1 AT3G43810 27.333 150 91 3 13 159 17 151 1.48e-11 60.5
MS.gene02545.t1 AT2G15680 29.333 150 92 4 5 154 47 182 2.44e-11 59.3
MS.gene02545.t1 AT3G56800 25.658 152 95 3 7 155 11 147 4.18e-11 58.2
MS.gene02545.t1 AT2G27030 25.658 152 95 3 7 155 11 147 4.18e-11 58.2
MS.gene02545.t1 AT2G41110 25.658 152 95 3 7 155 11 147 4.18e-11 58.2
MS.gene02545.t1 AT4G14640 28.358 134 84 2 22 155 9 130 7.16e-11 57.0
MS.gene02545.t1 AT1G50700 28.082 146 91 3 9 154 379 510 9.69e-11 59.3

Find 20 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTATTATTGCATATTCTT+TGG 0.260505 3.2:-75614373 None:intergenic
TTCAAAGTGTTTGATTTAGA+TGG 0.287480 3.2:+75614560 MS.gene02545:CDS
GTTGAAGAGACTTGGATTCT+TGG 0.328203 3.2:+75614619 MS.gene02545:CDS
ATGATACTAATTTGGATGGT+AGG 0.424224 3.2:+75614684 MS.gene02545:CDS
ACAAGAATTCATTGAAGTCT+AGG 0.438772 3.2:-75614442 None:intergenic
GGGATTGTAGAAGTATGATT+CGG 0.454094 3.2:+75614657 MS.gene02545:CDS
TCAACACACACTCAAGCTCT+TGG 0.480809 3.2:-75614601 None:intergenic
GTGTTTGATTTAGATGGAGA+TGG 0.487484 3.2:+75614566 MS.gene02545:CDS
TGAGAATGATGAGTTGGAGA+GGG 0.503791 3.2:+75614523 MS.gene02545:CDS
GAGAACAATGAAGAGAATAG+AGG 0.509945 3.2:+75614488 MS.gene02545:CDS
ATGAGAATGATGAGTTGGAG+AGG 0.535268 3.2:+75614522 MS.gene02545:CDS
TGAAGATGAGAATGATGAGT+TGG 0.536288 3.2:+75614517 MS.gene02545:CDS
GAGTGTGTGTTGAAGAGACT+TGG 0.561588 3.2:+75614611 MS.gene02545:CDS
AACAATGAAGAGAATAGAGG+AGG 0.573830 3.2:+75614491 MS.gene02545:CDS
GGATTCTTGGATGAAACTAG+TGG 0.580866 3.2:+75614632 MS.gene02545:CDS
CTTGGATGAAACTAGTGGGA+GGG 0.588870 3.2:+75614637 MS.gene02545:CDS
GCACAGAGTTTAGCTCCTCA+AGG 0.608778 3.2:-75614349 None:intergenic
AAGCTAGATACAAATTGTGA+CGG 0.623579 3.2:+75614317 MS.gene02545:CDS
GATTCTTGGATGAAACTAGT+GGG 0.626649 3.2:+75614633 MS.gene02545:CDS
TCTTGGATGAAACTAGTGGG+AGG 0.672233 3.2:+75614636 MS.gene02545:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTATGATACTAATTTGGA+TGG + chr3.2:75614680-75614699 MS.gene02545:CDS 20.0%
! AGCTATTATTGCATATTCTT+TGG - chr3.2:75614376-75614395 None:intergenic 25.0%
!! CTTTTACAACTCAATATCAA+AGG + chr3.2:75614466-75614485 MS.gene02545:CDS 25.0%
!! TTCAAAGTGTTTGATTTAGA+TGG + chr3.2:75614560-75614579 MS.gene02545:CDS 25.0%
!!! TCGGTTTTATGATACTAATT+TGG + chr3.2:75614676-75614695 MS.gene02545:CDS 25.0%
AAGCTAGATACAAATTGTGA+CGG + chr3.2:75614317-75614336 MS.gene02545:CDS 30.0%
ACAAGAATTCATTGAAGTCT+AGG - chr3.2:75614445-75614464 None:intergenic 30.0%
ATGATACTAATTTGGATGGT+AGG + chr3.2:75614684-75614703 MS.gene02545:CDS 30.0%
AACAATGAAGAGAATAGAGG+AGG + chr3.2:75614491-75614510 MS.gene02545:CDS 35.0%
GAGAACAATGAAGAGAATAG+AGG + chr3.2:75614488-75614507 MS.gene02545:CDS 35.0%
GATTCTTGGATGAAACTAGT+GGG + chr3.2:75614633-75614652 MS.gene02545:CDS 35.0%
TGAAGATGAGAATGATGAGT+TGG + chr3.2:75614517-75614536 MS.gene02545:CDS 35.0%
! GGGATTGTAGAAGTATGATT+CGG + chr3.2:75614657-75614676 MS.gene02545:CDS 35.0%
! GTGTTTGATTTAGATGGAGA+TGG + chr3.2:75614566-75614585 MS.gene02545:CDS 35.0%
GGATTCTTGGATGAAACTAG+TGG + chr3.2:75614632-75614651 MS.gene02545:CDS 40.0%
GTTGAAGAGACTTGGATTCT+TGG + chr3.2:75614619-75614638 MS.gene02545:CDS 40.0%
! ATGAGAATGATGAGTTGGAG+AGG + chr3.2:75614522-75614541 MS.gene02545:CDS 40.0%
! TGAGAATGATGAGTTGGAGA+GGG + chr3.2:75614523-75614542 MS.gene02545:CDS 40.0%
CTTGGATGAAACTAGTGGGA+GGG + chr3.2:75614637-75614656 MS.gene02545:CDS 45.0%
GAGTGTGTGTTGAAGAGACT+TGG + chr3.2:75614611-75614630 MS.gene02545:CDS 45.0%
TCAACACACACTCAAGCTCT+TGG - chr3.2:75614604-75614623 None:intergenic 45.0%
TCTTGGATGAAACTAGTGGG+AGG + chr3.2:75614636-75614655 MS.gene02545:CDS 45.0%
! GGATGGTAGGCTTGATTTTC+AGG + chr3.2:75614697-75614716 MS.gene02545:CDS 45.0%
! GCACAGAGTTTAGCTCCTCA+AGG - chr3.2:75614352-75614371 None:intergenic 50.0%
!! TGACGGTTTTGTGAGCCTTG+AGG + chr3.2:75614334-75614353 MS.gene02545:CDS 50.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 75614275 75614754 75614275 ID=MS.gene02545
chr3.2 mRNA 75614275 75614754 75614275 ID=MS.gene02545.t1;Parent=MS.gene02545
chr3.2 exon 75614275 75614754 75614275 ID=MS.gene02545.t1.exon1;Parent=MS.gene02545.t1
chr3.2 CDS 75614275 75614754 75614275 ID=cds.MS.gene02545.t1;Parent=MS.gene02545.t1
Gene Sequence

>MS.gene02545

ATGTCTATTCTATCTAGCACTGATTTGCATCGTATTTTTGAGAAGCTAGATACAAATTGTGACGGTTTTGTGAGCCTTGAGGAGCTAAACTCTGTGCTCCAAAGAATATGCAATAATAGCTCACAATTTAGCTTAGAAGAACTTGAATCTCTTGTAGAAAAGAAGAGCCTAGACTTCAATGAATTCTTGTTCTTTTACAACTCAATATCAAAGGAGAACAATGAAGAGAATAGAGGAGGTGATGAAGATGAGAATGATGAGTTGGAGAGGGATCTTGTGAAGACTTTCAAAGTGTTTGATTTAGATGGAGATGGATTCATTACAAGCCAAGAGCTTGAGTGTGTGTTGAAGAGACTTGGATTCTTGGATGAAACTAGTGGGAGGGATTGTAGAAGTATGATTCGGTTTTATGATACTAATTTGGATGGTAGGCTTGATTTTCAGGAATTCAAGAACATGATGTTGATTACAAGTGTATGA

Protein sequence

>MS.gene02545.t1

MSILSSTDLHRIFEKLDTNCDGFVSLEELNSVLQRICNNSSQFSLEELESLVEKKSLDFNEFLFFYNSISKENNEENRGGDEDENDELERDLVKTFKVFDLDGDGFITSQELECVLKRLGFLDETSGRDCRSMIRFYDTNLDGRLDFQEFKNMMLITSV