AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene21697

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene21697.t1 MTR_1g046950 73.913 115 29 1 1 114 28 142 2.31e-52 161
MS.gene21697.t1 MTR_5g008695 75.652 115 27 1 1 114 1 115 3.46e-52 160
MS.gene21697.t1 MTR_5g008705 74.336 113 28 1 1 113 18 129 8.29e-52 159
MS.gene21697.t1 MTR_5g079340 73.451 113 28 1 1 113 28 138 1.63e-51 159
MS.gene21697.t1 MTR_1g047100 73.451 113 30 0 1 113 28 140 1.74e-51 159
MS.gene21697.t1 MTR_3g067610 62.281 114 38 2 1 114 29 137 2.84e-44 140
MS.gene21697.t1 MTR_8g107110 51.786 112 52 1 1 112 48 157 1.70e-28 101
MS.gene21697.t1 MTR_6g079570 46.491 114 58 2 1 113 50 161 6.01e-25 93.2
MS.gene21697.t1 MTR_1g032070 41.964 112 64 1 1 112 70 180 3.37e-23 89.0
MS.gene21697.t1 MTR_8g105230 38.532 109 66 1 1 109 60 167 3.11e-20 81.3
MS.gene21697.t1 MTR_4g067270 38.938 113 66 2 2 112 30 141 1.36e-19 78.6
MS.gene21697.t1 MTR_8g036075 45.000 120 57 4 1 112 73 191 1.69e-19 79.7
MS.gene21697.t1 MTR_7g089760 40.708 113 64 2 2 112 30 141 3.26e-19 77.8
MS.gene21697.t1 MTR_7g075040 40.650 123 59 4 1 112 71 190 1.16e-18 77.4
MS.gene21697.t1 MTR_1g046960 62.712 59 22 0 1 59 1 59 1.36e-18 74.7
MS.gene21697.t1 MTR_0168s0120 37.838 111 68 1 2 112 1 110 1.82e-18 74.7
MS.gene21697.t1 MTR_6g025320 37.838 111 68 1 2 112 1 110 1.82e-18 74.7
MS.gene21697.t1 MTR_5g088320 37.500 112 69 1 1 112 36 146 4.27e-18 74.7
MS.gene21697.t1 MTR_6g025320 37.500 112 69 1 1 112 36 146 4.70e-18 74.7
MS.gene21697.t1 MTR_6g023460 35.135 111 70 1 2 112 33 141 6.36e-18 73.9
MS.gene21697.t1 MTR_7g087610 36.607 112 70 1 1 112 36 146 2.14e-17 72.8
MS.gene21697.t1 MTR_1g041285 34.821 112 72 1 1 112 36 146 4.89e-16 69.3
MS.gene21697.t1 MTR_1g076650 34.821 112 72 1 1 112 36 146 9.82e-16 68.6
MS.gene21697.t1 MTR_3g089070 35.135 111 70 1 2 112 31 139 4.26e-15 66.6
MS.gene21697.t1 MTR_3g089090 35.135 111 70 1 2 112 30 138 4.90e-15 66.6
MS.gene21697.t1 MTR_4g112460 28.696 115 81 1 1 114 35 149 3.35e-14 65.1
MS.gene21697.t1 MTR_1g071150 32.143 112 74 1 1 112 36 145 4.21e-14 64.3
MS.gene21697.t1 MTR_5g009830 37.288 118 61 4 2 114 396 505 9.85e-14 66.2
MS.gene21697.t1 MTR_8g099095 36.441 118 62 4 2 114 396 505 1.45e-13 65.9
MS.gene21697.t1 MTR_5g017510 36.893 103 60 3 11 112 84 182 1.47e-13 63.9
MS.gene21697.t1 MTR_5g017560 36.893 103 60 3 11 112 84 182 1.47e-13 63.9
MS.gene21697.t1 MTR_5g092810 37.931 116 59 4 2 112 422 529 3.64e-13 64.7
MS.gene21697.t1 MTR_4g086260 35.398 113 70 2 2 114 82 191 4.98e-13 62.4
MS.gene21697.t1 MTR_5g017550 36.957 92 56 1 21 112 92 181 5.86e-13 62.4
MS.gene21697.t1 MTR_4g103655 33.333 111 72 1 2 112 31 139 6.76e-13 61.2
MS.gene21697.t1 MTR_4g103650 33.333 111 72 1 2 112 27 135 1.51e-12 60.1
MS.gene21697.t1 MTR_4g132070 37.069 116 60 4 2 112 421 528 1.63e-12 62.8
MS.gene21697.t1 MTR_4g115170 40.000 110 49 3 20 112 107 216 1.69e-12 61.6
MS.gene21697.t1 MTR_3g051770 36.752 117 66 2 2 112 413 527 2.75e-12 62.0
MS.gene21697.t1 MTR_2g098890 35.088 114 71 2 2 112 89 202 5.22e-12 60.1
MS.gene21697.t1 MTR_8g066630 27.193 114 81 1 1 112 41 154 6.06e-12 59.3
MS.gene21697.t1 MTR_7g090450 31.897 116 75 3 1 112 97 212 7.47e-12 59.7
MS.gene21697.t1 MTR_3g083470 36.905 84 52 1 29 112 135 217 8.25e-12 59.7
MS.gene21697.t1 MTR_7g074240 36.066 122 67 3 2 112 49 170 1.16e-11 58.5
MS.gene21697.t1 MTR_4g103630 36.000 100 62 1 13 112 42 139 1.37e-11 57.8
MS.gene21697.t1 MTR_8g078270 32.456 114 72 3 2 113 78 188 2.79e-11 57.8
MS.gene21697.t1 MTR_7g115040 30.631 111 76 1 2 112 37 146 9.21e-11 55.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene21697.t1 AT1G18210 50.000 112 51 2 1 112 47 153 7.59e-30 105
MS.gene21697.t1 AT1G18210 50.000 112 51 2 1 112 47 153 7.59e-30 105
MS.gene21697.t1 AT1G73630 45.133 113 57 2 1 113 44 151 2.26e-27 99.0
MS.gene21697.t1 AT5G17470 41.739 115 62 2 2 113 27 139 3.80e-25 92.8
MS.gene21697.t1 AT1G66400 45.133 113 61 1 1 112 39 151 7.63e-25 92.4
MS.gene21697.t1 AT2G36180 44.348 115 58 2 2 112 25 137 7.97e-25 92.0
MS.gene21697.t1 AT5G37770 44.828 116 61 2 1 113 41 156 3.80e-24 90.5
MS.gene21697.t1 AT5G37770 44.828 116 61 2 1 113 41 156 3.80e-24 90.5
MS.gene21697.t1 AT1G24620 39.823 113 67 1 1 113 61 172 1.97e-21 84.3
MS.gene21697.t1 AT3G07490 41.593 113 63 2 2 112 30 141 9.50e-20 79.3
MS.gene21697.t1 AT2G15680 38.938 113 66 1 1 113 74 183 5.45e-19 78.2
MS.gene21697.t1 AT1G05990 38.053 113 68 1 2 112 30 142 6.30e-19 77.0
MS.gene21697.t1 AT1G66410 37.838 111 68 1 2 112 1 110 7.74e-19 75.9
MS.gene21697.t1 AT1G66410 37.838 111 68 1 2 112 1 110 7.74e-19 75.9
MS.gene21697.t1 AT5G37780 37.500 112 69 1 1 112 23 133 1.48e-18 75.5
MS.gene21697.t1 AT5G21274 38.393 112 68 1 1 112 36 146 1.89e-18 75.9
MS.gene21697.t1 AT3G43810 37.838 111 68 1 2 112 1 110 1.90e-18 74.7
MS.gene21697.t1 AT3G43810 37.838 111 68 1 2 112 1 110 1.90e-18 74.7
MS.gene21697.t1 AT5G37780 37.500 112 69 1 1 112 36 146 2.10e-18 75.5
MS.gene21697.t1 AT1G66410 37.500 112 69 1 1 112 36 146 2.10e-18 75.5
MS.gene21697.t1 AT1G66410 37.500 112 69 1 1 112 46 156 2.22e-18 75.9
MS.gene21697.t1 AT5G37780 37.500 112 69 1 1 112 51 161 3.04e-18 75.5
MS.gene21697.t1 AT5G37780 37.500 112 69 1 1 112 62 172 4.19e-18 75.5
MS.gene21697.t1 AT3G56800 37.500 112 69 1 1 112 36 146 4.57e-18 74.7
MS.gene21697.t1 AT2G27030 37.500 112 69 1 1 112 36 146 4.57e-18 74.7
MS.gene21697.t1 AT2G41110 37.500 112 69 1 1 112 36 146 4.57e-18 74.7
MS.gene21697.t1 AT3G43810 37.500 112 69 1 1 112 36 146 4.93e-18 74.7
MS.gene21697.t1 AT2G41110 37.500 112 69 1 1 112 48 158 4.93e-18 75.1
MS.gene21697.t1 AT2G27030 37.500 112 69 1 1 112 36 146 8.27e-18 74.7
MS.gene21697.t1 AT3G10190 41.228 114 63 3 1 112 94 205 1.70e-17 74.7
MS.gene21697.t1 AT3G43810 37.500 112 69 1 1 112 36 146 1.95e-17 74.7
MS.gene21697.t1 AT3G03400 37.383 107 62 2 2 105 30 134 1.25e-16 70.9
MS.gene21697.t1 AT4G37010 34.783 115 70 2 2 114 56 167 1.28e-16 71.6
MS.gene21697.t1 AT4G37010 34.783 115 70 2 2 114 52 163 1.31e-16 71.2
MS.gene21697.t1 AT3G50360 33.628 113 74 1 2 114 52 163 1.65e-16 71.2
MS.gene21697.t1 AT4G03290 35.043 117 72 2 2 114 30 146 6.22e-16 69.3
MS.gene21697.t1 AT3G22930 33.929 112 73 1 1 112 59 169 2.31e-15 68.2
MS.gene21697.t1 AT2G43290 35.043 117 70 2 2 112 90 206 2.51e-15 68.9
MS.gene21697.t1 AT4G12860 36.283 113 69 2 2 112 30 141 1.89e-14 65.5
MS.gene21697.t1 AT4G23650 36.441 118 62 4 2 114 408 517 2.06e-14 68.2
MS.gene21697.t1 AT3G59440 34.513 113 70 2 2 112 76 186 7.69e-14 64.7
MS.gene21697.t1 AT2G41410 32.075 106 71 1 8 112 102 207 9.71e-14 64.7
MS.gene21697.t1 AT4G14640 32.143 112 75 1 1 112 19 129 1.90e-13 62.4
MS.gene21697.t1 AT4G04695 37.069 116 60 4 2 112 361 468 2.67e-13 65.1
MS.gene21697.t1 AT4G14640 32.143 112 75 1 1 112 37 147 2.88e-13 62.4
MS.gene21697.t1 AT1G76650 35.780 109 68 1 4 112 70 176 5.77e-13 62.0
MS.gene21697.t1 AT1G76650 35.780 109 68 1 4 112 70 176 5.77e-13 62.0
MS.gene21697.t1 AT1G61950 37.719 114 62 3 2 112 429 536 8.08e-13 63.5
MS.gene21697.t1 AT1G32250 27.350 117 80 1 1 112 40 156 2.01e-12 60.5
MS.gene21697.t1 AT5G42380 32.432 111 75 0 2 112 74 184 4.26e-12 60.1
MS.gene21697.t1 AT4G04700 35.398 113 66 3 2 112 361 468 5.65e-12 61.2
MS.gene21697.t1 AT1G76650 38.462 91 54 1 22 112 78 166 6.90e-12 58.9
MS.gene21697.t1 AT4G21940 37.069 116 60 4 2 112 431 538 1.34e-11 60.1
MS.gene21697.t1 AT4G21940 37.069 116 60 4 2 112 431 538 1.38e-11 60.1
MS.gene21697.t1 AT4G04720 37.069 116 60 4 2 112 409 516 1.73e-11 59.7
MS.gene21697.t1 AT4G04720 37.069 116 60 4 2 112 409 516 1.73e-11 59.7
MS.gene21697.t1 AT4G04740 37.931 116 59 4 2 112 398 505 1.80e-11 59.7
MS.gene21697.t1 AT4G04740 37.931 116 59 4 2 112 398 505 1.80e-11 59.7
MS.gene21697.t1 AT4G04740 37.931 116 59 4 2 112 398 505 1.80e-11 59.7
MS.gene21697.t1 AT4G04740 37.931 116 59 4 2 112 398 505 1.80e-11 59.7
MS.gene21697.t1 AT4G04740 37.931 116 59 4 2 112 398 505 1.80e-11 59.7
MS.gene21697.t1 AT4G04740 37.931 116 59 4 2 112 398 505 1.80e-11 59.7
MS.gene21697.t1 AT2G41100 31.783 129 73 3 1 114 1 129 1.83e-11 59.3
MS.gene21697.t1 AT2G41100 31.783 129 73 3 1 114 1 129 1.83e-11 59.3
MS.gene21697.t1 AT2G41100 31.783 129 73 3 1 114 1 129 1.83e-11 59.3
MS.gene21697.t1 AT2G41100 31.783 129 73 3 1 114 36 164 2.12e-11 59.3
MS.gene21697.t1 AT2G41100 31.783 129 73 3 1 114 36 164 2.12e-11 59.3
MS.gene21697.t1 AT1G18530 27.826 115 82 1 1 114 31 145 2.27e-11 57.4
MS.gene21697.t1 AT3G20410 37.069 116 60 4 2 112 421 528 5.73e-11 58.5
MS.gene21697.t1 AT3G20410 37.069 116 60 4 2 112 421 528 5.73e-11 58.5

Find 21 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAACAATGTGCAGTTCTTT+TGG 0.251922 5.2:+2580196 None:intergenic
CACATTGTTCTTAATAAACT+TGG 0.346651 5.2:-2580184 MS.gene21697:CDS
TACTTCATCAGATGTCGTTT+TGG 0.347899 5.2:+2580381 None:intergenic
AAAGAAATGCTTTCAACGCT+TGG 0.389101 5.2:-2580406 None:intergenic
CGACGTTGCTTATCATTCTC+AGG 0.449084 5.2:+2580137 None:intergenic
TGACGGAAACATTAACTTTG+AGG 0.498713 5.2:-2580104 MS.gene21697:CDS
TGAGGAGTTCAAGAAGATGA+TGG 0.534080 5.2:-2580086 MS.gene21697:CDS
CGGATTGATCAGAACGGCGA+TGG 0.536019 5.2:-2580343 MS.gene21697:CDS
GATTTCCACTGCACTCATGT+TGG 0.557381 5.2:-2580295 MS.gene21697:CDS
TGATGAAGTAAAACGCATGA+AGG 0.558820 5.2:-2580368 MS.gene21697:CDS
CGTCCTTGTCGAGGTCGTAA+AGG 0.575303 5.2:+2580230 None:intergenic
AAGTAAAACGCATGAAGGAA+CGG 0.584140 5.2:-2580363 MS.gene21697:CDS
CGACCTTTACGACCTCGACA+AGG 0.613996 5.2:-2580233 MS.gene21697:CDS
AACGTCGATGTTGATGATGA+CGG 0.629007 5.2:-2580121 MS.gene21697:CDS
CATTCTCAGGTAGTCACCGA+GGG 0.631930 5.2:+2580150 None:intergenic
CTTGGCGAGAAGTACTCCCT+CGG 0.634170 5.2:-2580166 MS.gene21697:CDS
AGATGAGGCCGTCCTTGTCG+AGG 0.636799 5.2:+2580221 None:intergenic
CATCACCAACATGAGTGCAG+TGG 0.646931 5.2:+2580290 None:intergenic
AAGGAACGGATTGATCAGAA+CGG 0.690029 5.2:-2580349 MS.gene21697:CDS
CTTTACGACCTCGACAAGGA+CGG 0.703036 5.2:-2580229 MS.gene21697:CDS
TCATTCTCAGGTAGTCACCG+AGG 0.703464 5.2:+2580149 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CACATTGTTCTTAATAAACT+TGG - chr5.2:2580294-2580313 MS.gene21697:CDS 25.0%
AAGTAAAACGCATGAAGGAA+CGG - chr5.2:2580115-2580134 MS.gene21697:CDS 35.0%
TGACGGAAACATTAACTTTG+AGG - chr5.2:2580374-2580393 MS.gene21697:CDS 35.0%
TGATGAAGTAAAACGCATGA+AGG - chr5.2:2580110-2580129 MS.gene21697:CDS 35.0%
! AGAACAATGTGCAGTTCTTT+TGG + chr5.2:2580285-2580304 None:intergenic 35.0%
!! TACTTCATCAGATGTCGTTT+TGG + chr5.2:2580100-2580119 None:intergenic 35.0%
TGAGGAGTTCAAGAAGATGA+TGG - chr5.2:2580392-2580411 MS.gene21697:CDS 40.0%
!! AACGTCGATGTTGATGATGA+CGG - chr5.2:2580357-2580376 MS.gene21697:CDS 40.0%
!! AAGGAACGGATTGATCAGAA+CGG - chr5.2:2580129-2580148 MS.gene21697:CDS 40.0%
CGACGTTGCTTATCATTCTC+AGG + chr5.2:2580344-2580363 None:intergenic 45.0%
GATTTCCACTGCACTCATGT+TGG - chr5.2:2580183-2580202 MS.gene21697:CDS 45.0%
!! GCAGTTCTTTTGGAGAGATG+AGG + chr5.2:2580275-2580294 None:intergenic 45.0%
CATCACCAACATGAGTGCAG+TGG + chr5.2:2580191-2580210 None:intergenic 50.0%
CATTCTCAGGTAGTCACCGA+GGG + chr5.2:2580331-2580350 None:intergenic 50.0%
CTTTACGACCTCGACAAGGA+CGG - chr5.2:2580249-2580268 MS.gene21697:CDS 50.0%
TCATTCTCAGGTAGTCACCG+AGG + chr5.2:2580332-2580351 None:intergenic 50.0%
! GTGAAGCTCGTCGTCTTTTC+TGG + chr5.2:2580217-2580236 None:intergenic 50.0%
CGACCTTTACGACCTCGACA+AGG - chr5.2:2580245-2580264 MS.gene21697:CDS 55.0%
CGGATTGATCAGAACGGCGA+TGG - chr5.2:2580135-2580154 MS.gene21697:CDS 55.0%
CGTCCTTGTCGAGGTCGTAA+AGG + chr5.2:2580251-2580270 None:intergenic 55.0%
!! CTTGGCGAGAAGTACTCCCT+CGG - chr5.2:2580312-2580331 MS.gene21697:CDS 55.0%
AGATGAGGCCGTCCTTGTCG+AGG + chr5.2:2580260-2580279 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 2580078 2580422 2580078 ID=MS.gene21697
chr5.2 mRNA 2580078 2580422 2580078 ID=MS.gene21697.t1;Parent=MS.gene21697
chr5.2 exon 2580078 2580422 2580078 ID=MS.gene21697.t1.exon1;Parent=MS.gene21697.t1
chr5.2 CDS 2580078 2580422 2580078 ID=cds.MS.gene21697.t1;Parent=MS.gene21697.t1
Gene Sequence

>MS.gene21697

ATGCTTTCAACGCTTGGATCCAAAACGACATCTGATGAAGTAAAACGCATGAAGGAACGGATTGATCAGAACGGCGATGGTTACATTGATCTCAAAGAATTTGCTGATTTCCACTGCACTCATGTTGGTGATGCTGCCAGAAAAGACGACGAGCTTCACGATGCTATCGACCTTTACGACCTCGACAAGGACGGCCTCATCTCTCCAAAAGAACTGCACATTGTTCTTAATAAACTTGGCGAGAAGTACTCCCTCGGTGACTACCTGAGAATGATAAGCAACGTCGATGTTGATGATGACGGAAACATTAACTTTGAGGAGTTCAAGAAGATGATGGCTCGTTGA
Protein sequence

>MS.gene21697.t1

MLSTLGSKTTSDEVKRMKERIDQNGDGYIDLKEFADFHCTHVGDAARKDDELHDAIDLYDLDKDGLISPKELHIVLNKLGEKYSLGDYLRMISNVDVDDDGNINFEEFKKMMAR