AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene81626

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81626.t1 MTR_5g085390 94.043 235 11 3 1 233 1 234 1.68e-137 385
MS.gene81626.t1 MTR_6g011200 56.967 244 84 6 1 233 1 234 1.83e-80 241
MS.gene81626.t1 MTR_6g011250 63.121 141 50 1 1 139 1 141 8.56e-59 184
MS.gene81626.t1 MTR_6g011230 47.257 237 81 11 1 228 1 202 1.50e-54 174
MS.gene81626.t1 MTR_4g099230 63.910 133 43 1 10 142 3 130 1.89e-54 172
MS.gene81626.t1 MTR_6g004550 55.556 126 50 2 37 159 1 123 2.03e-37 128
MS.gene81626.t1 MTR_4g107450 54.717 106 47 1 8 113 9 113 2.20e-31 117
MS.gene81626.t1 MTR_8g017090 53.333 105 48 1 7 111 10 113 2.83e-29 111
MS.gene81626.t1 MTR_3g073690 45.098 102 55 1 10 111 10 110 7.94e-28 105
MS.gene81626.t1 MTR_7g033800 34.545 165 80 4 7 159 9 157 3.55e-27 102
MS.gene81626.t1 MTR_4g083680 32.164 171 97 5 10 178 16 169 9.24e-27 101
MS.gene81626.t1 MTR_3g452660 44.762 105 57 1 7 111 5 108 1.05e-26 104
MS.gene81626.t1 MTR_5g017950 43.810 105 58 1 7 111 6 109 2.25e-26 104
MS.gene81626.t1 MTR_8g040900 47.126 87 45 1 3 89 1 86 3.69e-26 101
MS.gene81626.t1 MTR_4g105170 42.056 107 60 2 7 112 9 114 1.83e-25 99.0
MS.gene81626.t1 MTR_6g005080 43.878 98 54 1 7 104 8 104 5.18e-25 96.3
MS.gene81626.t1 MTR_6g005070 43.878 98 54 1 7 104 7 103 5.55e-25 96.3
MS.gene81626.t1 MTR_3g077240 42.857 98 55 1 7 104 8 104 8.01e-25 97.4
MS.gene81626.t1 MTR_2g100020 45.283 106 57 1 8 113 18 122 9.84e-25 99.0
MS.gene81626.t1 MTR_5g083960 36.449 107 64 2 1 107 34 136 1.77e-24 96.7
MS.gene81626.t1 MTR_5g075020 38.938 113 64 3 1 112 38 146 2.68e-24 97.1
MS.gene81626.t1 MTR_5g075020 38.938 113 64 3 1 112 42 150 3.52e-24 96.7
MS.gene81626.t1 MTR_3g031660 36.441 118 74 1 10 127 8 124 8.54e-24 94.4
MS.gene81626.t1 MTR_2g068760 42.105 95 50 2 10 104 14 103 1.49e-23 93.2
MS.gene81626.t1 MTR_5g093010 31.944 144 89 4 10 149 6 144 3.71e-23 91.7
MS.gene81626.t1 MTR_2g093310 48.750 80 40 1 10 89 34 112 4.12e-23 92.8
MS.gene81626.t1 MTR_7g028905 37.864 103 63 1 10 112 6 107 1.41e-22 89.4
MS.gene81626.t1 MTR_3g094690 38.182 110 60 3 1 110 42 143 1.75e-22 92.4
MS.gene81626.t1 MTR_5g083010 38.053 113 61 3 5 113 7 114 5.10e-22 89.4
MS.gene81626.t1 MTR_5g083230 42.169 83 47 1 7 89 4 85 5.16e-22 89.4
MS.gene81626.t1 MTR_8g079620 40.367 109 61 2 3 111 5 109 6.37e-22 90.9
MS.gene81626.t1 MTR_4g060950 43.158 95 52 2 10 103 25 118 9.65e-22 89.0
MS.gene81626.t1 MTR_3g071590 34.459 148 87 5 10 157 9 146 2.69e-21 87.0
MS.gene81626.t1 MTR_3g094690 37.273 110 60 3 1 110 42 142 4.56e-21 88.6
MS.gene81626.t1 MTR_3g071420 38.614 101 57 2 5 105 10 105 4.88e-21 87.0
MS.gene81626.t1 MTR_1g095850 40.594 101 59 1 10 110 73 172 1.86e-20 86.7
MS.gene81626.t1 MTR_8g079660 39.450 109 62 2 3 111 5 109 1.15e-19 85.1
MS.gene81626.t1 MTR_5g080470 32.381 105 69 2 8 111 6 109 3.87e-16 74.3
MS.gene81626.t1 MTR_8g079580 37.615 109 63 3 3 110 5 109 4.19e-16 75.1
MS.gene81626.t1 MTR_7g096530 33.654 104 67 2 10 112 15 117 1.45e-15 73.2
MS.gene81626.t1 MTR_8g036105 35.922 103 64 2 10 111 19 120 1.61e-15 73.2
MS.gene81626.t1 MTR_1g070220 35.000 100 63 2 10 108 16 114 5.30e-15 71.6
MS.gene81626.t1 MTR_6g027710 33.051 118 69 4 3 114 37 150 9.50e-15 71.2
MS.gene81626.t1 MTR_8g009730 30.469 128 87 2 9 136 10 135 1.99e-14 69.7
MS.gene81626.t1 MTR_6g027700 30.645 124 78 3 10 126 8 130 5.18e-14 68.9
MS.gene81626.t1 MTR_7g074990 33.000 100 65 2 10 108 21 119 6.57e-14 68.9
MS.gene81626.t1 MTR_1g070205 34.783 115 65 5 10 123 13 118 9.43e-14 68.6
MS.gene81626.t1 MTR_8g036085 32.039 103 68 2 10 111 24 125 1.03e-13 68.6
MS.gene81626.t1 MTR_4g088035 25.157 159 108 2 9 157 6 163 2.20e-12 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81626.t1 AT3G47870 56.863 102 43 1 9 110 36 136 5.83e-36 129
MS.gene81626.t1 AT3G13850 48.246 114 58 1 8 121 35 147 1.47e-29 111
MS.gene81626.t1 AT1G65620 30.348 201 130 2 7 207 7 197 2.57e-27 103
MS.gene81626.t1 AT1G65620 30.348 201 130 2 7 207 7 197 2.57e-27 103
MS.gene81626.t1 AT1G65620 30.348 201 130 2 7 207 7 197 2.57e-27 103
MS.gene81626.t1 AT1G65620 30.348 201 130 2 7 207 7 197 2.57e-27 103
MS.gene81626.t1 AT1G65620 30.348 201 130 2 7 207 7 197 2.57e-27 103
MS.gene81626.t1 AT5G66870 44.118 102 56 1 10 111 8 108 2.56e-26 103
MS.gene81626.t1 AT3G27650 41.441 111 63 2 7 116 37 146 1.94e-25 97.8
MS.gene81626.t1 AT2G40470 34.247 146 84 5 1 145 15 149 4.58e-25 98.2
MS.gene81626.t1 AT2G40470 34.247 146 84 5 1 145 40 174 8.34e-25 98.2
MS.gene81626.t1 AT5G63090 40.566 106 62 1 7 112 9 113 8.97e-25 97.1
MS.gene81626.t1 AT5G63090 40.566 106 62 1 7 112 9 113 8.97e-25 97.1
MS.gene81626.t1 AT5G63090 40.566 106 62 1 7 112 9 113 8.97e-25 97.1
MS.gene81626.t1 AT5G63090 40.566 106 62 1 7 112 9 113 8.97e-25 97.1
MS.gene81626.t1 AT1G72980 42.975 121 67 2 9 128 13 132 1.28e-24 97.4
MS.gene81626.t1 AT2G30340 37.037 108 64 2 1 108 48 151 1.09e-23 96.3
MS.gene81626.t1 AT2G30340 37.037 108 64 2 1 108 47 150 1.22e-23 95.9
MS.gene81626.t1 AT1G31320 47.500 80 41 1 10 89 14 92 1.26e-23 93.6
MS.gene81626.t1 AT1G07900 48.750 80 40 1 10 89 34 112 3.35e-22 90.5
MS.gene81626.t1 AT2G23660 41.176 102 59 1 10 111 6 106 4.80e-22 92.4
MS.gene81626.t1 AT2G23660 41.176 102 59 1 10 111 6 106 4.80e-22 92.4
MS.gene81626.t1 AT2G23660 41.176 102 59 1 10 111 6 106 4.80e-22 92.4
MS.gene81626.t1 AT2G28500 48.750 80 40 1 10 89 56 134 9.20e-22 90.1
MS.gene81626.t1 AT3G26660 34.615 104 67 1 8 111 4 106 1.57e-21 86.7
MS.gene81626.t1 AT3G26620 32.174 115 77 1 8 122 4 117 1.86e-21 86.7
MS.gene81626.t1 AT1G16530 34.921 126 76 4 10 133 15 136 5.08e-21 86.7
MS.gene81626.t1 AT2G30130 36.522 115 71 2 10 124 9 121 5.11e-21 87.4
MS.gene81626.t1 AT1G06280 40.385 104 54 3 7 110 22 117 3.60e-20 85.5
MS.gene81626.t1 AT3G50510 39.091 110 65 2 5 113 8 116 3.71e-20 85.1
MS.gene81626.t1 AT3G50510 39.091 110 65 2 5 113 8 116 3.71e-20 85.1
MS.gene81626.t1 AT3G11090 35.644 101 60 2 5 105 7 102 5.48e-20 84.0
MS.gene81626.t1 AT5G15060 45.205 73 39 1 10 81 18 90 4.66e-17 75.5
MS.gene81626.t1 AT2G19820 40.000 80 48 0 10 89 13 92 1.21e-16 73.9
MS.gene81626.t1 AT4G00210 31.343 134 89 3 10 142 12 143 1.05e-15 73.6
MS.gene81626.t1 AT5G35900 31.068 103 70 1 9 111 5 106 4.78e-15 71.6
MS.gene81626.t1 AT3G03760 34.314 102 65 2 10 110 52 152 7.40e-15 72.4
MS.gene81626.t1 AT4G00220 32.673 101 66 2 12 111 20 119 1.31e-14 70.9
MS.gene81626.t1 AT5G06080 30.597 134 81 4 9 141 7 129 1.74e-13 67.0
MS.gene81626.t1 AT2G42430 36.585 82 50 2 10 90 16 96 1.84e-13 68.2
MS.gene81626.t1 AT2G31310 31.298 131 72 4 10 127 8 133 4.31e-13 65.9
MS.gene81626.t1 AT3G58190 32.039 103 68 2 10 111 12 113 9.43e-13 65.5
MS.gene81626.t1 AT2G45420 31.683 101 67 2 12 111 40 139 1.46e-12 65.9
MS.gene81626.t1 AT2G42440 30.303 99 67 2 10 107 8 105 1.63e-12 65.5
MS.gene81626.t1 AT2G45410 32.673 101 66 2 12 111 19 118 1.27e-11 62.0

Find 41 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTTAAATATTGGGATATT+TGG 0.141273 5.1:-67310898 None:intergenic
TCACCAACATTGTTAAATAT+TGG 0.190888 5.1:-67310907 None:intergenic
CTTGGTGTTATTATGAATTA+TGG 0.198268 5.1:+67310754 MS.gene81626:CDS
AGCTAGAACAACATTTGATT+TGG 0.257325 5.1:+67311146 MS.gene81626:CDS
TCATTGCTTGATAATCCTTT+TGG 0.267871 5.1:-67311078 None:intergenic
CATGCTGCACAAGCCTTGTT+TGG 0.269582 5.1:-67310514 None:intergenic
TCCTTTAGCTCCTTATTTCC+CGG 0.285923 5.1:+67310570 MS.gene81626:CDS
GGAATTTGAGAACTAGTATA+AGG 0.287802 5.1:-67310877 None:intergenic
AATATCCGACTCAATAATTA+TGG 0.288561 5.1:-67310704 None:intergenic
CACCAACATTGTTAAATATT+GGG 0.294726 5.1:-67310906 None:intergenic
GGTTTATCGGCCGGGAAATA+AGG 0.295833 5.1:-67310580 None:intergenic
GCTAGAACAACATTTGATTT+GGG 0.363338 5.1:+67311147 MS.gene81626:CDS
AGCAACGCTCATCGTTTGTT+TGG 0.383470 5.1:+67310613 MS.gene81626:CDS
GGATGACAATTCTAATTTGA+TGG 0.388591 5.1:+67311053 MS.gene81626:CDS
CCTCATGATGTTAACTATAG+TGG 0.400420 5.1:+67311015 MS.gene81626:CDS
AGATATGTTAAAGCAGTCTA+TGG 0.416875 5.1:+67310777 MS.gene81626:CDS
CTTTAGTATCCTTTGTATGT+TGG 0.435097 5.1:-67310641 None:intergenic
CGTGCAAAATCTCCCGTTCA+TGG 0.444453 5.1:+67310727 MS.gene81626:CDS
ATCCCAATATTTAACAATGT+TGG 0.449694 5.1:+67310904 MS.gene81626:CDS
GACGACCTTGACGACCTTGA+TGG 0.456186 5.1:+67311108 MS.gene81626:CDS
ATTATCAAGCAATGAAGAAT+CGG 0.467820 5.1:+67311086 MS.gene81626:CDS
TCTAATTTGATGGTACCAAA+AGG 0.475215 5.1:+67311063 MS.gene81626:CDS
ACACCAAGACATCCATGAAC+GGG 0.497015 5.1:-67310739 None:intergenic
TTTGGTTTGATGATATTCAT+TGG 0.504277 5.1:-67310496 None:intergenic
TTGAGAACTAGTATAAGGTA+AGG 0.504496 5.1:-67310872 None:intergenic
TCTCCCGTTCATGGATGTCT+TGG 0.510462 5.1:+67310736 MS.gene81626:CDS
AAAGCAGTCTATGGAAGAGT+TGG 0.512156 5.1:+67310786 MS.gene81626:CDS
AAGGATACTAAAGGAAATCA+AGG 0.515917 5.1:+67310651 MS.gene81626:CDS
GCCGGGAAATAAGGAGCTAA+AGG 0.524058 5.1:-67310571 None:intergenic
CAACATACAAAGGATACTAA+AGG 0.551295 5.1:+67310642 MS.gene81626:CDS
GAGATCCATAATTATTGAGT+CGG 0.580015 5.1:+67310699 MS.gene81626:CDS
CCACTATAGTTAACATCATG+AGG 0.583308 5.1:-67311015 None:intergenic
GTTCATCAACACCACCATCA+AGG 0.592727 5.1:-67311122 None:intergenic
GAATATCATCAAACCAAACA+AGG 0.597163 5.1:+67310501 MS.gene81626:CDS
TTGGTGTTTCCAACATACAA+AGG 0.602738 5.1:+67310632 MS.gene81626:CDS
AACACCAAGACATCCATGAA+CGG 0.603796 5.1:-67310740 None:intergenic
CACCACCATCAAGGTCGTCA+AGG 0.611148 5.1:-67311113 None:intergenic
CATGATGTTAACTATAGTGG+TGG 0.632189 5.1:+67311018 MS.gene81626:CDS
TAGTGGTGGCGACTATGTCA+TGG 0.648101 5.1:+67311032 MS.gene81626:CDS
CACTATAGTTAACATCATGA+GGG 0.659397 5.1:-67311014 None:intergenic
GACCTTGACGACCTTGATGG+TGG 0.667335 5.1:+67311111 MS.gene81626:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GGATAATAATAATAATAATT+AGG - chr5.1:67310937-67310956 None:intergenic 10.0%
!!! ATATTATTATTTTCACTATT+GGG - chr5.1:67310958-67310977 None:intergenic 10.0%
!!! CATATTATTATTTTCACTAT+TGG - chr5.1:67310959-67310978 None:intergenic 15.0%
!! TTGTTAAATATTGGGATATT+TGG - chr5.1:67310901-67310920 None:intergenic 20.0%
! AATATCCGACTCAATAATTA+TGG - chr5.1:67310707-67310726 None:intergenic 25.0%
! ATCCCAATATTTAACAATGT+TGG + chr5.1:67310904-67310923 MS.gene81626:CDS 25.0%
! ATTATCAAGCAATGAAGAAT+CGG + chr5.1:67311086-67311105 MS.gene81626:CDS 25.0%
! CACCAACATTGTTAAATATT+GGG - chr5.1:67310909-67310928 None:intergenic 25.0%
! TCACCAACATTGTTAAATAT+TGG - chr5.1:67310910-67310929 None:intergenic 25.0%
!!! ACATTTGATTTGGGAAAAAA+AGG + chr5.1:67311156-67311175 MS.gene81626:CDS 25.0%
!!! CTTGGTGTTATTATGAATTA+TGG + chr5.1:67310754-67310773 MS.gene81626:CDS 25.0%
!!! GCTAAACATTTTTGGTTTAT+CGG - chr5.1:67310596-67310615 None:intergenic 25.0%
AAGGATACTAAAGGAAATCA+AGG + chr5.1:67310651-67310670 MS.gene81626:CDS 30.0%
AGATATGTTAAAGCAGTCTA+TGG + chr5.1:67310777-67310796 MS.gene81626:CDS 30.0%
AGCTAGAACAACATTTGATT+TGG + chr5.1:67311146-67311165 MS.gene81626:CDS 30.0%
CAACATACAAAGGATACTAA+AGG + chr5.1:67310642-67310661 MS.gene81626:CDS 30.0%
CACTATAGTTAACATCATGA+GGG - chr5.1:67311017-67311036 None:intergenic 30.0%
CTTTAGTATCCTTTGTATGT+TGG - chr5.1:67310644-67310663 None:intergenic 30.0%
GAATATCATCAAACCAAACA+AGG + chr5.1:67310501-67310520 MS.gene81626:CDS 30.0%
GAGATCCATAATTATTGAGT+CGG + chr5.1:67310699-67310718 MS.gene81626:CDS 30.0%
GGAATTTGAGAACTAGTATA+AGG - chr5.1:67310880-67310899 None:intergenic 30.0%
GGATGACAATTCTAATTTGA+TGG + chr5.1:67311053-67311072 MS.gene81626:CDS 30.0%
TTGAGAACTAGTATAAGGTA+AGG - chr5.1:67310875-67310894 None:intergenic 30.0%
! GCTAGAACAACATTTGATTT+GGG + chr5.1:67311147-67311166 MS.gene81626:CDS 30.0%
! TCTAATTTGATGGTACCAAA+AGG + chr5.1:67311063-67311082 MS.gene81626:CDS 30.0%
!! TCATTGCTTGATAATCCTTT+TGG - chr5.1:67311081-67311100 None:intergenic 30.0%
CATGATGTTAACTATAGTGG+TGG + chr5.1:67311018-67311037 MS.gene81626:CDS 35.0%
CCACTATAGTTAACATCATG+AGG - chr5.1:67311018-67311037 None:intergenic 35.0%
CCTCATGATGTTAACTATAG+TGG + chr5.1:67311015-67311034 MS.gene81626:CDS 35.0%
! TTGGTGTTTCCAACATACAA+AGG + chr5.1:67310632-67310651 MS.gene81626:CDS 35.0%
!! TGAGCGTTGCTAAACATTTT+TGG - chr5.1:67310604-67310623 None:intergenic 35.0%
!!! AACATTTTTGGTTTATCGGC+CGG - chr5.1:67310592-67310611 None:intergenic 35.0%
AAAGCAGTCTATGGAAGAGT+TGG + chr5.1:67310786-67310805 MS.gene81626:CDS 40.0%
AACACCAAGACATCCATGAA+CGG - chr5.1:67310743-67310762 None:intergenic 40.0%
! TCCTTTAGCTCCTTATTTCC+CGG + chr5.1:67310570-67310589 MS.gene81626:CDS 40.0%
!!! ACATTTTTGGTTTATCGGCC+GGG - chr5.1:67310591-67310610 None:intergenic 40.0%
ACACCAAGACATCCATGAAC+GGG - chr5.1:67310742-67310761 None:intergenic 45.0%
AGCAACGCTCATCGTTTGTT+TGG + chr5.1:67310613-67310632 MS.gene81626:CDS 45.0%
GTTCATCAACACCACCATCA+AGG - chr5.1:67311125-67311144 None:intergenic 45.0%
CGTGCAAAATCTCCCGTTCA+TGG + chr5.1:67310727-67310746 MS.gene81626:CDS 50.0%
GCCGGGAAATAAGGAGCTAA+AGG - chr5.1:67310574-67310593 None:intergenic 50.0%
GGTTTATCGGCCGGGAAATA+AGG - chr5.1:67310583-67310602 None:intergenic 50.0%
TCTCCCGTTCATGGATGTCT+TGG + chr5.1:67310736-67310755 MS.gene81626:CDS 50.0%
! TAGTGGTGGCGACTATGTCA+TGG + chr5.1:67311032-67311051 MS.gene81626:CDS 50.0%
!! CATGCTGCACAAGCCTTGTT+TGG - chr5.1:67310517-67310536 None:intergenic 50.0%
CACCACCATCAAGGTCGTCA+AGG - chr5.1:67311116-67311135 None:intergenic 55.0%
GACCTTGACGACCTTGATGG+TGG + chr5.1:67311111-67311130 MS.gene81626:CDS 55.0%
GACGACCTTGACGACCTTGA+TGG + chr5.1:67311108-67311127 MS.gene81626:CDS 55.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 67310499 67311200 67310499 ID=MS.gene81626
chr5.1 mRNA 67310499 67311200 67310499 ID=MS.gene81626.t1;Parent=MS.gene81626
chr5.1 exon 67310499 67311200 67310499 ID=MS.gene81626.t1.exon1;Parent=MS.gene81626.t1
chr5.1 CDS 67310499 67311200 67310499 ID=cds.MS.gene81626.t1;Parent=MS.gene81626.t1
Gene Sequence

>MS.gene81626

ATGAATATCATCAAACCAAACAAGGCTTGTGCAGCATGCAAGTATCAAAGAAGAAAGTGTTCAATTGAGTGTCCTTTAGCTCCTTATTTCCCGGCCGATAAACCAAAAATGTTTAGCAACGCTCATCGTTTGTTTGGTGTTTCCAACATACAAAGGATACTAAAGGAAATCAAGGACGACGATCAAAAAGATGATGCGATGAGATCCATAATTATTGAGTCGGATATTCGTGCAAAATCTCCCGTTCATGGATGTCTTGGTGTTATTATGAATTATGGAGATATGTTAAAGCAGTCTATGGAAGAGTTGGATCATGTAAAAACGTTACTAGCTTATTGTAACGATTTACAACAAAAACAACATCTTCATTCTTCCTTACCTTATACTAGTTCTCAAATTCCAAATATCCCAATATTTAACAATGTTGGTGATGTTCCTAATTATTATTATTATTATCCCAATAGTGAAAATAATAATATGATGAGAGCATCTTCTTCTTATATTAGTGACATCATCCCTCATGATGTTAACTATAGTGGTGGCGACTATGTCATGGATGACAATTCTAATTTGATGGTACCAAAAGGATTATCAAGCAATGAAGAATCGGACGACCTTGACGACCTTGATGGTGGTGTTGATGAACAAGCTAGAACAACATTTGATTTGGGAAAAAAAGGAAGATTTTCAGATAGCGATTAA
Protein sequence

>MS.gene81626.t1

MNIIKPNKACAACKYQRRKCSIECPLAPYFPADKPKMFSNAHRLFGVSNIQRILKEIKDDDQKDDAMRSIIIESDIRAKSPVHGCLGVIMNYGDMLKQSMEELDHVKTLLAYCNDLQQKQHLHSSLPYTSSQIPNIPIFNNVGDVPNYYYYYPNSENNNMMRASSSYISDIIPHDVNYSGGDYVMDDNSNLMVPKGLSSNEESDDLDDLDGGVDEQARTTFDLGKKGRFSDSD