AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene30077


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene30077.t1 MTR_7g033800 96.512 172 6 0 1 172 1 172 2.51e-126 352
MS.gene30077.t1 MTR_6g005070 90.000 110 11 0 4 113 2 111 1.08e-70 210
MS.gene30077.t1 MTR_3g077240 86.957 115 14 1 1 115 1 114 2.15e-70 211
MS.gene30077.t1 MTR_6g005080 86.607 112 15 0 4 115 3 114 2.06e-69 207
MS.gene30077.t1 MTR_4g105170 65.116 172 45 3 1 157 1 172 3.20e-69 208
MS.gene30077.t1 MTR_8g040900 55.294 170 54 3 6 171 2 153 1.50e-51 164
MS.gene30077.t1 MTR_5g017950 66.364 110 37 0 5 114 2 111 1.42e-49 162
MS.gene30077.t1 MTR_5g083230 62.393 117 40 1 9 125 4 116 1.44e-49 157
MS.gene30077.t1 MTR_3g073690 66.667 111 37 0 5 115 3 113 1.68e-48 156
MS.gene30077.t1 MTR_5g083010 50.000 150 69 1 8 157 8 151 4.36e-47 151
MS.gene30077.t1 MTR_4g083680 64.078 103 37 0 10 112 14 116 9.95e-47 150
MS.gene30077.t1 MTR_3g452660 67.290 107 35 0 8 114 4 110 1.05e-46 154
MS.gene30077.t1 MTR_2g068760 63.107 103 38 0 10 112 12 114 1.68e-46 149
MS.gene30077.t1 MTR_3g071590 59.829 117 43 1 8 124 5 117 7.09e-46 148
MS.gene30077.t1 MTR_3g031660 60.577 104 41 0 9 112 5 108 1.16e-44 145
MS.gene30077.t1 MTR_3g071420 67.010 97 32 0 8 104 11 107 1.37e-44 145
MS.gene30077.t1 MTR_5g083960 59.821 112 45 0 3 114 31 142 6.23e-44 144
MS.gene30077.t1 MTR_3g094690 61.905 105 40 0 10 114 46 150 8.48e-44 145
MS.gene30077.t1 MTR_2g093310 59.223 103 42 0 10 112 32 134 2.85e-41 137
MS.gene30077.t1 MTR_3g094690 60.952 105 40 1 10 114 46 149 3.24e-41 138
MS.gene30077.t1 MTR_7g096530 60.000 115 42 2 1 111 1 115 1.06e-40 137
MS.gene30077.t1 MTR_4g060950 54.464 112 50 1 2 112 15 126 4.64e-40 134
MS.gene30077.t1 MTR_8g036085 59.048 105 42 1 11 114 23 127 5.15e-39 132
MS.gene30077.t1 MTR_5g075020 63.810 105 38 0 10 114 42 146 6.26e-39 132
MS.gene30077.t1 MTR_5g075020 63.810 105 38 0 10 114 46 150 9.61e-39 132
MS.gene30077.t1 MTR_1g070220 57.265 117 45 2 1 112 1 117 2.24e-38 130
MS.gene30077.t1 MTR_1g095850 57.426 101 43 0 12 112 73 173 5.70e-38 130
MS.gene30077.t1 MTR_8g036105 59.804 102 40 1 11 111 18 119 6.20e-36 124
MS.gene30077.t1 MTR_7g074990 61.053 95 36 1 11 104 20 114 1.50e-35 124
MS.gene30077.t1 MTR_7g028905 50.980 102 50 0 10 111 4 105 1.64e-34 117
MS.gene30077.t1 MTR_5g080470 55.670 97 42 1 10 105 6 102 6.73e-34 118
MS.gene30077.t1 MTR_6g027710 51.923 104 49 1 10 112 39 142 3.89e-33 117
MS.gene30077.t1 MTR_8g079660 50.000 104 52 0 11 114 8 111 4.09e-33 118
MS.gene30077.t1 MTR_7g096610 57.143 98 41 1 8 104 5 102 5.67e-33 117
MS.gene30077.t1 MTR_7g075230 53.043 115 51 2 11 122 12 126 1.76e-32 115
MS.gene30077.t1 MTR_1g070205 54.737 95 42 1 11 104 12 106 3.12e-32 115
MS.gene30077.t1 MTR_5g093010 46.552 116 58 1 12 127 6 117 3.54e-32 112
MS.gene30077.t1 MTR_4g107450 37.580 157 86 4 12 161 11 162 2.39e-30 112
MS.gene30077.t1 MTR_8g079620 46.154 104 56 0 11 114 8 111 2.56e-29 108
MS.gene30077.t1 MTR_6g011200 44.898 98 53 1 9 105 7 104 3.23e-28 105
MS.gene30077.t1 MTR_6g027700 48.515 101 51 1 11 110 7 107 3.41e-28 104
MS.gene30077.t1 MTR_8g079580 46.667 105 55 1 11 114 8 112 8.98e-27 101
MS.gene30077.t1 MTR_6g011230 43.000 100 57 0 8 107 8 107 1.20e-26 100
MS.gene30077.t1 MTR_6g011250 44.762 105 57 1 8 111 6 110 4.32e-26 98.6
MS.gene30077.t1 MTR_8g017090 41.346 104 61 0 8 111 9 112 8.33e-26 100
MS.gene30077.t1 MTR_2g100020 42.708 96 55 0 12 107 20 115 3.95e-23 92.8
MS.gene30077.t1 MTR_4g099230 38.462 104 62 2 12 114 3 105 1.56e-22 88.6
MS.gene30077.t1 MTR_5g085390 39.423 104 62 1 9 111 7 110 4.53e-20 84.0
MS.gene30077.t1 MTR_4g088035 35.556 90 58 0 10 99 5 94 4.11e-18 79.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene30077.t1 AT3G27650 84.956 113 17 0 5 117 33 145 4.65e-70 209
MS.gene30077.t1 AT5G63090 83.898 118 19 0 1 118 1 118 1.73e-68 206
MS.gene30077.t1 AT5G63090 83.898 118 19 0 1 118 1 118 1.73e-68 206
MS.gene30077.t1 AT5G63090 83.898 118 19 0 1 118 1 118 1.73e-68 206
MS.gene30077.t1 AT5G63090 83.898 118 19 0 1 118 1 118 1.73e-68 206
MS.gene30077.t1 AT1G65620 69.828 116 33 1 1 116 1 114 3.70e-51 162
MS.gene30077.t1 AT1G65620 69.828 116 33 1 1 116 1 114 3.70e-51 162
MS.gene30077.t1 AT1G65620 69.828 116 33 1 1 116 1 114 3.70e-51 162
MS.gene30077.t1 AT1G65620 69.828 116 33 1 1 116 1 114 3.70e-51 162
MS.gene30077.t1 AT1G65620 69.828 116 33 1 1 116 1 114 3.70e-51 162
MS.gene30077.t1 AT5G66870 65.455 110 38 0 6 115 2 111 1.82e-49 162
MS.gene30077.t1 AT2G30130 62.281 114 39 1 9 122 6 115 5.90e-48 154
MS.gene30077.t1 AT2G23660 60.748 107 42 0 8 114 2 108 1.11e-45 152
MS.gene30077.t1 AT2G23660 60.748 107 42 0 8 114 2 108 1.11e-45 152
MS.gene30077.t1 AT2G23660 60.748 107 42 0 8 114 2 108 1.11e-45 152
MS.gene30077.t1 AT1G31320 59.322 118 46 1 10 125 12 129 2.76e-44 144
MS.gene30077.t1 AT1G16530 61.607 112 42 1 10 120 13 124 6.81e-44 143
MS.gene30077.t1 AT2G30340 55.932 118 47 1 10 122 51 168 6.92e-43 144
MS.gene30077.t1 AT2G30340 55.932 118 47 1 10 122 52 169 7.10e-43 144
MS.gene30077.t1 AT3G11090 59.259 108 44 0 8 115 8 115 1.76e-42 139
MS.gene30077.t1 AT1G07900 59.223 103 42 0 10 112 32 134 2.09e-41 137
MS.gene30077.t1 AT2G28500 59.223 103 42 0 10 112 54 156 5.89e-41 138
MS.gene30077.t1 AT3G26660 51.304 115 55 1 12 125 6 120 2.38e-39 130
MS.gene30077.t1 AT2G40470 61.905 105 40 0 10 114 19 123 2.56e-39 132
MS.gene30077.t1 AT3G26620 56.000 100 44 0 12 111 6 105 5.00e-39 129
MS.gene30077.t1 AT2G40470 61.905 105 40 0 10 114 44 148 5.77e-39 132
MS.gene30077.t1 AT2G42430 55.372 121 49 2 1 116 1 121 4.57e-38 130
MS.gene30077.t1 AT3G03760 57.692 104 43 1 10 112 50 153 1.33e-37 130
MS.gene30077.t1 AT4G00210 55.357 112 49 1 1 111 1 112 1.68e-36 126
MS.gene30077.t1 AT2G45420 60.606 99 38 1 14 111 40 138 2.96e-36 126
MS.gene30077.t1 AT4G00220 60.606 99 38 1 14 111 20 118 5.75e-36 125
MS.gene30077.t1 AT2G45410 44.937 158 79 4 14 170 19 169 1.48e-33 117
MS.gene30077.t1 AT5G06080 50.467 107 52 1 10 115 6 112 2.48e-33 116
MS.gene30077.t1 AT3G58190 55.660 106 46 1 1 105 1 106 4.40e-33 117
MS.gene30077.t1 AT2G31310 55.208 96 42 1 10 104 6 101 5.26e-33 116
MS.gene30077.t1 AT2G42440 52.525 99 46 1 8 105 4 102 1.32e-32 117
MS.gene30077.t1 AT3G50510 48.113 106 55 0 9 114 10 115 2.68e-31 112
MS.gene30077.t1 AT3G50510 48.113 106 55 0 9 114 10 115 2.68e-31 112
MS.gene30077.t1 AT5G35900 41.964 112 65 0 12 123 6 117 3.22e-28 104
MS.gene30077.t1 AT3G13850 36.220 127 81 0 12 138 37 163 1.93e-27 103
MS.gene30077.t1 AT3G47870 37.615 109 68 0 8 116 33 141 1.79e-25 100
MS.gene30077.t1 AT1G72980 40.541 111 66 0 1 111 3 113 5.56e-24 94.0
MS.gene30077.t1 AT1G06280 43.011 93 52 1 12 104 25 116 7.06e-20 82.8
MS.gene30077.t1 AT4G22700 37.838 111 67 2 12 121 6 115 2.88e-19 80.9
MS.gene30077.t1 AT2G19820 37.363 91 56 1 8 97 9 99 8.46e-16 70.1
MS.gene30077.t1 AT5G15060 41.096 73 41 1 12 82 18 90 9.17e-16 70.5
MS.gene30077.t1 AT3G27940 35.821 67 43 0 10 76 4 70 4.21e-11 58.5
MS.gene30077.t1 AT3G27940 35.821 67 43 0 10 76 4 70 4.21e-11 58.5
MS.gene30077.t1 AT3G27940 35.821 67 43 0 10 76 4 70 4.21e-11 58.5

Find 40 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAAATGTTCACAAAATATT+TGG 0.149406 7.1:-63714706 MS.gene30077:CDS
GCAAATTTCTGTGGCTCTTC+TGG 0.194109 7.1:+63714727 None:intergenic
AGGATTAAAGATCCAGTTTA+TGG 0.225345 7.1:-63714595 MS.gene30077:CDS
GGCTCTTCTGGTGGGAAATA+TGG 0.297872 7.1:+63714739 None:intergenic
AATCCTTGCCTCGGCTTCAT+AGG 0.305194 7.1:+63714612 None:intergenic
TAGTAGAATCAAGTTCCTTT+TGG 0.319682 7.1:+63714527 None:intergenic
GGAGCCTAAGAACTTGTCTT+TGG 0.328487 7.1:+63714548 None:intergenic
ATCATGATATCGCAGCTATA+AGG 0.383935 7.1:-63714462 MS.gene30077:CDS
GCACCAACACAACCATAAAC+TGG 0.396732 7.1:+63714583 None:intergenic
GATGGAAGCGGTTCTTCTCT+TGG 0.408243 7.1:-63714427 MS.gene30077:CDS
TCCTCCAAAGACAAGTTCTT+AGG 0.431787 7.1:-63714552 MS.gene30077:CDS
TTGTCTTTGGAGGACTGAAA+TGG 0.450349 7.1:+63714561 None:intergenic
TATGGAGCAAATATGCAATC+TGG 0.454516 7.1:+63714757 None:intergenic
AATTTCTGTGGCTCTTCTGG+TGG 0.462397 7.1:+63714730 None:intergenic
TCTTGGTCAATCTCCTCCTC+CGG 0.481615 7.1:-63714410 MS.gene30077:CDS
ATAAGGATCGGTGGTGAAGA+TGG 0.485997 7.1:-63714445 MS.gene30077:CDS
GCCTAAGAACTTGTCTTTGG+AGG 0.492984 7.1:+63714551 None:intergenic
TGGATCTTTAATCCTTGCCT+CGG 0.516855 7.1:+63714603 None:intergenic
ACAAGTTCTTAGGCTCCAAA+AGG 0.517159 7.1:-63714542 MS.gene30077:CDS
TGAAGTGCAACCACATCAAA+GGG 0.518270 7.1:-63714656 MS.gene30077:CDS
TCATTATTGTTCCAAGGAGA+AGG 0.524865 7.1:+63714376 None:intergenic
ATAGCTGCGATATCATGATT+CGG 0.525283 7.1:+63714466 None:intergenic
ACTGCATCTTCCCTTTGATG+TGG 0.539992 7.1:+63714646 None:intergenic
ATGAAGTGCAACCACATCAA+AGG 0.542513 7.1:-63714657 MS.gene30077:CDS
GATCCAGTTTATGGTTGTGT+TGG 0.554848 7.1:-63714586 MS.gene30077:CDS
ATTTCTGTGGCTCTTCTGGT+GGG 0.562695 7.1:+63714731 None:intergenic
AGTGGATCATTATTGTTCCA+AGG 0.566470 7.1:+63714370 None:intergenic
CTCTCTTGCCTATGAAGCCG+AGG 0.568060 7.1:-63714620 MS.gene30077:CDS
GATGGTTATCACACAGGAGG+AGG 0.572079 7.1:-63714343 MS.gene30077:CDS
AATAATGATCCACTTGGTGA+TGG 0.581399 7.1:-63714361 MS.gene30077:CDS
TGAACATTTGCAAATTTCTG+TGG 0.582165 7.1:+63714718 None:intergenic
TTGCCTATGAAGCCGAGGCA+AGG 0.591021 7.1:-63714615 MS.gene30077:CDS
ATCGGTGGTGAAGATGGAAG+CGG 0.616830 7.1:-63714439 MS.gene30077:CDS
AGCACATGGTGAATTTGAGT+AGG 0.632061 7.1:+63714810 None:intergenic
GATATCGCAGCTATAAGGAT+CGG 0.642191 7.1:-63714457 MS.gene30077:CDS
TGGAACAATAATGATCCACT+TGG 0.642355 7.1:-63714367 MS.gene30077:CDS
CTTGGTGATGGTTATCACAC+AGG 0.642976 7.1:-63714349 MS.gene30077:CDS
ATCGCAGCTATAAGGATCGG+TGG 0.650659 7.1:-63714454 MS.gene30077:CDS
GTGTGATAACCATCACCAAG+TGG 0.670592 7.1:+63714352 None:intergenic
GGTGATGGTTATCACACAGG+AGG 0.698306 7.1:-63714346 MS.gene30077:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GCAAATGTTCACAAAATATT+TGG - chr7.1:63714450-63714469 MS.gene30077:CDS 25.0%
AGGATTAAAGATCCAGTTTA+TGG - chr7.1:63714561-63714580 MS.gene30077:CDS 30.0%
TGAACATTTGCAAATTTCTG+TGG + chr7.1:63714441-63714460 None:intergenic 30.0%
! TAGTAGAATCAAGTTCCTTT+TGG + chr7.1:63714632-63714651 None:intergenic 30.0%
AGTGGATCATTATTGTTCCA+AGG + chr7.1:63714789-63714808 None:intergenic 35.0%
ATAGCTGCGATATCATGATT+CGG + chr7.1:63714693-63714712 None:intergenic 35.0%
ATCATGATATCGCAGCTATA+AGG - chr7.1:63714694-63714713 MS.gene30077:CDS 35.0%
TATGGAGCAAATATGCAATC+TGG + chr7.1:63714402-63714421 None:intergenic 35.0%
TCATTATTGTTCCAAGGAGA+AGG + chr7.1:63714783-63714802 None:intergenic 35.0%
TGGAACAATAATGATCCACT+TGG - chr7.1:63714789-63714808 MS.gene30077:CDS 35.0%
! AATAATGATCCACTTGGTGA+TGG - chr7.1:63714795-63714814 MS.gene30077:CDS 35.0%
! CTTTTTACTATCCTTCTCCT+TGG - chr7.1:63714769-63714788 MS.gene30077:CDS 35.0%
ACAAGTTCTTAGGCTCCAAA+AGG - chr7.1:63714614-63714633 MS.gene30077:CDS 40.0%
AGCACATGGTGAATTTGAGT+AGG + chr7.1:63714349-63714368 None:intergenic 40.0%
ATGAAGTGCAACCACATCAA+AGG - chr7.1:63714499-63714518 MS.gene30077:CDS 40.0%
GATATCGCAGCTATAAGGAT+CGG - chr7.1:63714699-63714718 MS.gene30077:CDS 40.0%
GATCCAGTTTATGGTTGTGT+TGG - chr7.1:63714570-63714589 MS.gene30077:CDS 40.0%
GGAGAAGGATAGTAAAAAGC+CGG + chr7.1:63714768-63714787 None:intergenic 40.0%
TCCTCCAAAGACAAGTTCTT+AGG - chr7.1:63714604-63714623 MS.gene30077:CDS 40.0%
TGAAGTGCAACCACATCAAA+GGG - chr7.1:63714500-63714519 MS.gene30077:CDS 40.0%
TGGATCTTTAATCCTTGCCT+CGG + chr7.1:63714556-63714575 None:intergenic 40.0%
! TTGTCTTTGGAGGACTGAAA+TGG + chr7.1:63714598-63714617 None:intergenic 40.0%
AAAAACTTGCACGCAGCACA+TGG + chr7.1:63714363-63714382 None:intergenic 45.0%
AATTTCTGTGGCTCTTCTGG+TGG + chr7.1:63714429-63714448 None:intergenic 45.0%
ACTGCATCTTCCCTTTGATG+TGG + chr7.1:63714513-63714532 None:intergenic 45.0%
ATAAGGATCGGTGGTGAAGA+TGG - chr7.1:63714711-63714730 MS.gene30077:CDS 45.0%
ATTTCTGTGGCTCTTCTGGT+GGG + chr7.1:63714428-63714447 None:intergenic 45.0%
GAAGGATAGTAAAAAGCCGG+AGG + chr7.1:63714765-63714784 None:intergenic 45.0%
GCAAATTTCTGTGGCTCTTC+TGG + chr7.1:63714432-63714451 None:intergenic 45.0%
GCACCAACACAACCATAAAC+TGG + chr7.1:63714576-63714595 None:intergenic 45.0%
GCCTAAGAACTTGTCTTTGG+AGG + chr7.1:63714608-63714627 None:intergenic 45.0%
GGAGCCTAAGAACTTGTCTT+TGG + chr7.1:63714611-63714630 None:intergenic 45.0%
GTGTGATAACCATCACCAAG+TGG + chr7.1:63714807-63714826 None:intergenic 45.0%
!! CTGCGTGCAAGTTTTTGAGA+AGG - chr7.1:63714367-63714386 MS.gene30077:CDS 45.0%
!! CTTGGTGATGGTTATCACAC+AGG - chr7.1:63714807-63714826 MS.gene30077:CDS 45.0%
AATCCTTGCCTCGGCTTCAT+AGG + chr7.1:63714547-63714566 None:intergenic 50.0%
ATCGCAGCTATAAGGATCGG+TGG - chr7.1:63714702-63714721 MS.gene30077:CDS 50.0%
ATCGGTGGTGAAGATGGAAG+CGG - chr7.1:63714717-63714736 MS.gene30077:CDS 50.0%
GATGGAAGCGGTTCTTCTCT+TGG - chr7.1:63714729-63714748 MS.gene30077:CDS 50.0%
GATGGTTATCACACAGGAGG+AGG - chr7.1:63714813-63714832 MS.gene30077:CDS 50.0%
GGATAGTAAAAAGCCGGAGG+AGG + chr7.1:63714762-63714781 None:intergenic 50.0%
GGCTCTTCTGGTGGGAAATA+TGG + chr7.1:63714420-63714439 None:intergenic 50.0%
TCTTGGTCAATCTCCTCCTC+CGG - chr7.1:63714746-63714765 MS.gene30077:CDS 50.0%
! GGTGATGGTTATCACACAGG+AGG - chr7.1:63714810-63714829 MS.gene30077:CDS 50.0%
CTCTCTTGCCTATGAAGCCG+AGG - chr7.1:63714536-63714555 MS.gene30077:CDS 55.0%
TTGCCTATGAAGCCGAGGCA+AGG - chr7.1:63714541-63714560 MS.gene30077:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 63714330 63714848 63714330 ID=MS.gene30077
chr7.1 mRNA 63714330 63714848 63714330 ID=MS.gene30077.t1;Parent=MS.gene30077
chr7.1 exon 63714330 63714848 63714330 ID=MS.gene30077.t1.exon1;Parent=MS.gene30077.t1
chr7.1 CDS 63714330 63714848 63714330 ID=cds.MS.gene30077.t1;Parent=MS.gene30077.t1
Gene Sequence

>MS.gene30077

ATGGCATCTTCAAGCGCCTACTCAAATTCACCATGTGCTGCGTGCAAGTTTTTGAGAAGGAAGTGCATGCCAGATTGCATATTTGCTCCATATTTCCCACCAGAAGAGCCACAGAAATTTGCAAATGTTCACAAAATATTTGGTGCAAGCAATGTGAGTAAACTTCTGAATGAAGTGCAACCACATCAAAGGGAAGATGCAGTGAACTCTCTTGCCTATGAAGCCGAGGCAAGGATTAAAGATCCAGTTTATGGTTGTGTTGGTGCCATTTCAGTCCTCCAAAGACAAGTTCTTAGGCTCCAAAAGGAACTTGATTCTACTAATGCTGATTTGATTCGCTATACTACTTGCACTGAAATTCCGAATCATGATATCGCAGCTATAAGGATCGGTGGTGAAGATGGAAGCGGTTCTTCTCTTGGTCAATCTCCTCCTCCGGCTTTTTACTATCCTTCTCCTTGGAACAATAATGATCCACTTGGTGATGGTTATCACACAGGAGGAGGTGACAATATGTAA

Protein sequence

>MS.gene30077.t1

MASSSAYSNSPCAACKFLRRKCMPDCIFAPYFPPEEPQKFANVHKIFGASNVSKLLNEVQPHQREDAVNSLAYEAEARIKDPVYGCVGAISVLQRQVLRLQKELDSTNADLIRYTTCTEIPNHDIAAIRIGGEDGSGSSLGQSPPPAFYYPSPWNNNDPLGDGYHTGGGDNM