AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene067638

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067638.t1 MTR_4g031910 73.799 229 53 1 1 222 1 229 3.37e-115 328
MS.gene067638.t1 MTR_4g032290 69.262 244 40 2 1 222 1 231 8.75e-110 315
MS.gene067638.t1 MTR_4g032620 58.009 231 88 1 1 222 1 231 4.98e-94 275
MS.gene067638.t1 MTR_8g036130 57.085 247 81 4 1 222 1 247 5.79e-89 262
MS.gene067638.t1 MTR_4g032260 80.255 157 31 0 1 157 1 157 2.56e-81 240
MS.gene067638.t1 MTR_3g065100 49.378 241 97 4 1 219 1 238 2.46e-65 202
MS.gene067638.t1 MTR_3g466980 45.690 232 101 5 1 218 1 221 1.54e-63 197
MS.gene067638.t1 MTR_2g035610 72.131 122 34 0 1 122 1 122 7.21e-51 161
MS.gene067638.t1 MTR_4g032270 56.204 137 45 2 94 222 2 131 1.92e-46 150
MS.gene067638.t1 MTR_5g075380 47.742 155 80 1 1 155 1 154 5.92e-46 150
MS.gene067638.t1 MTR_3g466830 49.007 151 76 1 3 153 2 151 1.11e-45 149
MS.gene067638.t1 MTR_4g063790 45.455 154 84 0 1 154 1 154 1.48e-45 149
MS.gene067638.t1 MTR_3g031100 35.268 224 133 4 1 219 1 217 2.44e-43 146
MS.gene067638.t1 MTR_3g467080 43.590 156 88 0 1 156 1 156 2.76e-43 143
MS.gene067638.t1 MTR_5g047580 46.154 156 82 2 1 156 1 154 6.25e-41 137
MS.gene067638.t1 MTR_3g466890 46.053 152 81 1 3 154 2 152 1.32e-40 136
MS.gene067638.t1 MTR_2g016210 38.983 177 107 1 1 176 1 177 1.69e-40 139
MS.gene067638.t1 MTR_1g077390 42.308 156 88 2 1 156 1 154 3.22e-37 127
MS.gene067638.t1 MTR_1g090783 42.208 154 87 2 3 156 2 153 1.42e-35 123
MS.gene067638.t1 MTR_3g465410 44.444 126 70 0 29 154 1 126 6.23e-35 121
MS.gene067638.t1 MTR_1g077320 44.231 156 85 2 1 156 1 154 8.06e-35 121
MS.gene067638.t1 MTR_7g011950 43.590 156 86 2 1 156 1 154 2.85e-34 120
MS.gene067638.t1 MTR_4g028720 44.231 156 85 2 1 156 1 154 4.20e-34 120
MS.gene067638.t1 MTR_1g084950 44.872 156 84 2 1 156 1 154 1.94e-33 118
MS.gene067638.t1 MTR_1g090710 38.961 154 93 1 1 154 1 153 2.88e-33 117
MS.gene067638.t1 MTR_1g090697 40.667 150 87 2 1 150 1 148 1.01e-32 116
MS.gene067638.t1 MTR_1g077300 43.590 156 84 2 1 156 1 152 2.98e-32 115
MS.gene067638.t1 MTR_4g028800 77.143 70 14 1 1 70 1 68 4.34e-31 109
MS.gene067638.t1 MTR_3g031240 34.615 156 102 0 1 156 1 156 1.14e-30 112
MS.gene067638.t1 MTR_7g055800 50.427 117 30 2 1 117 1 89 4.18e-29 105
MS.gene067638.t1 MTR_3g466900 41.463 123 71 1 32 154 2 123 2.03e-28 104
MS.gene067638.t1 MTR_2g035580 38.217 157 96 1 1 157 1 156 3.04e-26 99.8
MS.gene067638.t1 MTR_3g466930 39.024 123 74 1 32 154 2 123 4.53e-26 98.6
MS.gene067638.t1 MTR_7g055790 52.252 111 35 1 1 111 59 151 6.19e-26 98.6
MS.gene067638.t1 MTR_7g106510 39.370 127 77 0 3 129 6 132 1.37e-24 101
MS.gene067638.t1 MTR_4g019670 40.157 127 76 0 3 129 6 132 2.72e-24 100
MS.gene067638.t1 MTR_7g055940 49.057 106 26 2 1 106 1 78 8.01e-24 90.9
MS.gene067638.t1 MTR_5g047560 36.538 156 81 3 1 156 1 138 3.88e-23 91.3
MS.gene067638.t1 MTR_3g093900 31.690 142 97 0 3 144 6 147 1.20e-21 92.8
MS.gene067638.t1 MTR_2g035590 58.025 81 34 0 74 154 1 81 1.69e-19 80.5
MS.gene067638.t1 MTR_1g114730 31.858 113 70 3 1 107 1 112 3.18e-13 68.2
MS.gene067638.t1 MTR_6g018920 32.743 113 69 4 1 107 1 112 4.97e-13 67.4
MS.gene067638.t1 MTR_6g005450 33.628 113 68 4 1 107 1 112 3.34e-12 65.1
MS.gene067638.t1 MTR_4g084780 38.739 111 52 2 74 168 1 111 1.36e-11 60.8
MS.gene067638.t1 MTR_6g005440 35.398 113 66 3 1 107 1 112 3.81e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067638.t1 AT5G48670 55.844 154 67 1 1 154 1 153 1.92e-46 156
MS.gene067638.t1 AT1G65330 44.643 168 83 2 3 161 2 168 1.06e-40 140
MS.gene067638.t1 AT1G65300 46.053 152 81 1 3 154 2 152 3.13e-40 139
MS.gene067638.t1 AT5G26630 44.503 191 95 2 1 181 1 190 1.48e-39 135
MS.gene067638.t1 AT5G26650 36.019 211 114 4 5 204 3 203 1.99e-35 129
MS.gene067638.t1 AT5G27960 40.476 168 89 3 5 162 3 169 5.18e-35 126
MS.gene067638.t1 AT1G31630 36.905 168 95 3 3 161 2 167 5.35e-34 124
MS.gene067638.t1 AT1G31640 39.735 151 89 2 3 153 2 150 3.43e-32 122
MS.gene067638.t1 AT3G05860 37.975 158 97 1 1 158 1 157 6.79e-31 113
MS.gene067638.t1 AT3G05860 37.975 158 97 1 1 158 1 157 1.21e-30 113
MS.gene067638.t1 AT3G05860 37.975 158 97 1 1 158 1 157 1.32e-30 114
MS.gene067638.t1 AT5G27810 55.914 93 41 0 29 121 1 93 2.21e-30 109
MS.gene067638.t1 AT2G28700 37.423 163 97 2 1 161 1 160 2.40e-29 112
MS.gene067638.t1 AT1G22590 32.099 162 106 1 1 162 1 158 2.04e-26 100
MS.gene067638.t1 AT5G26580 34.416 154 86 2 1 154 1 139 1.15e-23 97.1
MS.gene067638.t1 AT5G06500 35.669 157 99 2 1 157 1 155 8.32e-23 92.8
MS.gene067638.t1 AT2G40210 37.984 129 79 1 1 129 1 128 1.47e-17 80.5
MS.gene067638.t1 AT5G58890 37.795 127 68 5 6 123 6 130 3.26e-15 73.2
MS.gene067638.t1 AT5G55690 42.308 78 38 2 1 71 1 78 2.57e-12 65.1
MS.gene067638.t1 AT5G55690 42.308 78 38 2 1 71 1 78 2.57e-12 65.1
MS.gene067638.t1 AT5G27090 34.444 90 58 1 7 95 23 112 7.40e-11 59.7
MS.gene067638.t1 AT5G27944 39.726 73 43 1 24 95 41 113 9.99e-11 59.7

Find 57 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAACAAAGAAAAGAAAAT+AGG 0.231520 4.1:-69147847 MS.gene067638:CDS
CCCTTTGGTGAGATCAATTA+TGG 0.234667 4.1:-69147530 MS.gene067638:CDS
TACCAATGTCCTTCAAATTA+TGG 0.254451 4.1:+69147720 None:intergenic
ATAATTTCATCATCATTAAT+AGG 0.285530 4.1:+69147608 None:intergenic
GTGAGATCAATTATGGAGTT+TGG 0.309548 4.1:-69147523 MS.gene067638:CDS
AACAAAGGGTCTATTGAAAA+AGG 0.314581 4.1:-69148080 MS.gene067638:CDS
ATGAGCCTCAACCTGAGATT+TGG 0.345571 4.1:-69148000 MS.gene067638:CDS
GATTCTTCAAGGTAGTAAAT+CGG 0.382086 4.1:+69147499 None:intergenic
TATGCAAAGTCAATTATTGA+TGG 0.385590 4.1:-69147588 MS.gene067638:CDS
AGCATCTAGGAGTGAGGAAA+TGG 0.388175 4.1:-69147660 MS.gene067638:CDS
GAAGGACATTGGTAGACGTT+TGG 0.410243 4.1:-69147711 MS.gene067638:CDS
CTAGATGCTGTTGGAGGTGG+TGG 0.417295 4.1:+69147674 None:intergenic
GAAACAAAGAAAAGAAAATA+GGG 0.419680 4.1:-69147846 MS.gene067638:CDS
GTTGATTGACCATAATTTGA+AGG 0.445081 4.1:-69147729 MS.gene067638:CDS
CACAACCATGGCTAGAAGTA+AGG 0.457305 4.1:-69148158 None:intergenic
ATTCTTCAAGGTAGTAAATC+GGG 0.463226 4.1:+69147500 None:intergenic
TCTGGTGAAGGCCAAATCTC+AGG 0.467267 4.1:+69147989 None:intergenic
CTCATAAGAGCCATACACTA+TGG 0.467809 4.1:+69148018 None:intergenic
CTCCTAGATGCTGTTGGAGG+TGG 0.476689 4.1:+69147671 None:intergenic
TCAATTATTGATGGACTCAA+TGG 0.482426 4.1:-69147579 MS.gene067638:CDS
TTGATTTGAGTTATCTTACT+TGG 0.482489 4.1:-69147751 MS.gene067638:CDS
TCCTCACTCCTAGATGCTGT+TGG 0.486555 4.1:+69147665 None:intergenic
CTTGACACAAAGGATTCTGA+AGG 0.491635 4.1:-69147885 MS.gene067638:CDS
TGCAGCATCATTGACAATGA+AGG 0.502295 4.1:+69148126 None:intergenic
TTGTGGGTCATGGCCATGTT+GGG 0.512249 4.1:-69147634 MS.gene067638:CDS
TTTGTGTCAAGAAAGTCTCT+TGG 0.512375 4.1:+69147897 None:intergenic
GATGCTGTTGGAGGTGGTGG+TGG 0.513228 4.1:+69147677 None:intergenic
GAGTGAGGAAATGGAAATTG+TGG 0.516317 4.1:-69147651 MS.gene067638:CDS
GACCATAATTTGAAGGACAT+TGG 0.517963 4.1:-69147722 MS.gene067638:CDS
GGACATTGGTAGACGTTTGG+CGG 0.524285 4.1:-69147708 MS.gene067638:CDS
AGTGAGGAAATGGAAATTGT+GGG 0.526750 4.1:-69147650 MS.gene067638:CDS
TCACTCCTAGATGCTGTTGG+AGG 0.527908 4.1:+69147668 None:intergenic
ATTGTGGGTCATGGCCATGT+TGG 0.537983 4.1:-69147635 MS.gene067638:CDS
CACCACCTCCAACAGCATCT+AGG 0.540352 4.1:-69147673 MS.gene067638:CDS
ATGTCTCATTGTCTAAATGA+AGG 0.544347 4.1:-69147803 MS.gene067638:CDS
CCATAATTGATCTCACCAAA+GGG 0.558369 4.1:+69147530 None:intergenic
GAAGCCTGTGCCATAGTGTA+TGG 0.560968 4.1:-69148028 MS.gene067638:CDS
GAGATTTGGCCTTCACCAGA+GGG 0.565461 4.1:-69147986 MS.gene067638:CDS
TTTAACCTTACTTCTAGCCA+TGG 0.572129 4.1:+69148153 None:intergenic
GATTTGGCCTTCACCAGAGG+GGG 0.573799 4.1:-69147984 MS.gene067638:CDS
TCCATAATTGATCTCACCAA+AGG 0.580970 4.1:+69147529 None:intergenic
GTGCACGAGACAGTGCCCTT+TGG 0.582311 4.1:-69147545 MS.gene067638:CDS
AAGAGACTTTCTTGACACAA+AGG 0.587821 4.1:-69147895 MS.gene067638:CDS
CATTAATAGGTATCCCAACA+TGG 0.589301 4.1:+69147621 None:intergenic
GAAGGCCAAATCTCAGGTTG+AGG 0.598100 4.1:+69147995 None:intergenic
ACAGGCTTCAATGCCACAGA+GGG 0.601811 4.1:+69148042 None:intergenic
TTGATGGACTCAATGGTGGC+TGG 0.607204 4.1:-69147572 MS.gene067638:CDS
TGAGATTTGGCCTTCACCAG+AGG 0.614269 4.1:-69147987 MS.gene067638:CDS
TCCAACAGCATCTAGGAGTG+AGG 0.643310 4.1:-69147666 MS.gene067638:CDS
AGATTTGGCCTTCACCAGAG+GGG 0.650878 4.1:-69147985 MS.gene067638:CDS
TCATTGTCAATGATGCTGCA+AGG 0.652548 4.1:-69148123 MS.gene067638:CDS
GAAATGGAAATTGTGGGTCA+TGG 0.655161 4.1:-69147644 MS.gene067638:CDS
AGAGCCATACACTATGGCAC+AGG 0.656790 4.1:+69148024 None:intergenic
ATTATTGATGGACTCAATGG+TGG 0.666274 4.1:-69147576 MS.gene067638:CDS
GCTGAACTTAGCACCCTCTG+TGG 0.677042 4.1:-69148055 MS.gene067638:CDS
TGTGCACGACAATATGTCAA+CGG 0.688304 4.1:-69147774 MS.gene067638:CDS
CACAGGCTTCAATGCCACAG+AGG 0.696692 4.1:+69148041 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAATTTCATCATCATTAAT+AGG + chr4.1:69148051-69148070 None:intergenic 15.0%
!! AACATACAAAAAAAGAACAA+AGG - chr4.1:69147561-69147580 MS.gene067638:CDS 20.0%
!! ACATACAAAAAAAGAACAAA+GGG - chr4.1:69147562-69147581 MS.gene067638:CDS 20.0%
!! AGAAACAAAGAAAAGAAAAT+AGG - chr4.1:69147809-69147828 MS.gene067638:CDS 20.0%
!! GAAACAAAGAAAAGAAAATA+GGG - chr4.1:69147810-69147829 MS.gene067638:CDS 20.0%
! TATGCAAAGTCAATTATTGA+TGG - chr4.1:69148068-69148087 MS.gene067638:CDS 25.0%
!! TTGATTTGAGTTATCTTACT+TGG - chr4.1:69147905-69147924 MS.gene067638:CDS 25.0%
AACAAAGGGTCTATTGAAAA+AGG - chr4.1:69147576-69147595 MS.gene067638:CDS 30.0%
ATGTCTCATTGTCTAAATGA+AGG - chr4.1:69147853-69147872 MS.gene067638:CDS 30.0%
GTTGATTGACCATAATTTGA+AGG - chr4.1:69147927-69147946 MS.gene067638:CDS 30.0%
TACCAATGTCCTTCAAATTA+TGG + chr4.1:69147939-69147958 None:intergenic 30.0%
!! TCAATTATTGATGGACTCAA+TGG - chr4.1:69148077-69148096 MS.gene067638:CDS 30.0%
AAGAGACTTTCTTGACACAA+AGG - chr4.1:69147761-69147780 MS.gene067638:CDS 35.0%
AGTGAGGAAATGGAAATTGT+GGG - chr4.1:69148006-69148025 MS.gene067638:CDS 35.0%
CATTAATAGGTATCCCAACA+TGG + chr4.1:69148038-69148057 None:intergenic 35.0%
CCATAATTGATCTCACCAAA+GGG + chr4.1:69148129-69148148 None:intergenic 35.0%
GACCATAATTTGAAGGACAT+TGG - chr4.1:69147934-69147953 MS.gene067638:CDS 35.0%
GTGAGATCAATTATGGAGTT+TGG - chr4.1:69148133-69148152 MS.gene067638:CDS 35.0%
TCCATAATTGATCTCACCAA+AGG + chr4.1:69148130-69148149 None:intergenic 35.0%
TTTGTGTCAAGAAAGTCTCT+TGG + chr4.1:69147762-69147781 None:intergenic 35.0%
!! ATTATTGATGGACTCAATGG+TGG - chr4.1:69148080-69148099 MS.gene067638:CDS 35.0%
!! TGAATTTTGAGAGCACAGAT+TGG + chr4.1:69147699-69147718 None:intergenic 35.0%
CCCTTTGGTGAGATCAATTA+TGG - chr4.1:69148126-69148145 MS.gene067638:CDS 40.0%
CTCATAAGAGCCATACACTA+TGG + chr4.1:69147641-69147660 None:intergenic 40.0%
CTTGACACAAAGGATTCTGA+AGG - chr4.1:69147771-69147790 MS.gene067638:CDS 40.0%
GAAATGGAAATTGTGGGTCA+TGG - chr4.1:69148012-69148031 MS.gene067638:CDS 40.0%
GAGTGAGGAAATGGAAATTG+TGG - chr4.1:69148005-69148024 MS.gene067638:CDS 40.0%
TCATTGTCAATGATGCTGCA+AGG - chr4.1:69147533-69147552 MS.gene067638:CDS 40.0%
TGCAGCATCATTGACAATGA+AGG + chr4.1:69147533-69147552 None:intergenic 40.0%
TGTGCACGACAATATGTCAA+CGG - chr4.1:69147882-69147901 MS.gene067638:CDS 40.0%
AGCATCTAGGAGTGAGGAAA+TGG - chr4.1:69147996-69148015 MS.gene067638:CDS 45.0%
ATGAGCCTCAACCTGAGATT+TGG - chr4.1:69147656-69147675 MS.gene067638:CDS 45.0%
GAAGGACATTGGTAGACGTT+TGG - chr4.1:69147945-69147964 MS.gene067638:CDS 45.0%
ACAGGCTTCAATGCCACAGA+GGG + chr4.1:69147617-69147636 None:intergenic 50.0%
AGAGCCATACACTATGGCAC+AGG + chr4.1:69147635-69147654 None:intergenic 50.0%
ATTGTGGGTCATGGCCATGT+TGG - chr4.1:69148021-69148040 MS.gene067638:CDS 50.0%
GAAGCCTGTGCCATAGTGTA+TGG - chr4.1:69147628-69147647 MS.gene067638:CDS 50.0%
GGACATTGGTAGACGTTTGG+CGG - chr4.1:69147948-69147967 MS.gene067638:CDS 50.0%
TCACTCCTAGATGCTGTTGG+AGG + chr4.1:69147991-69148010 None:intergenic 50.0%
TCCAACAGCATCTAGGAGTG+AGG - chr4.1:69147990-69148009 MS.gene067638:CDS 50.0%
TCCTCACTCCTAGATGCTGT+TGG + chr4.1:69147994-69148013 None:intergenic 50.0%
TCTGGTGAAGGCCAAATCTC+AGG + chr4.1:69147670-69147689 None:intergenic 50.0%
TTGTGGGTCATGGCCATGTT+GGG - chr4.1:69148022-69148041 MS.gene067638:CDS 50.0%
! AGATTTGGCCTTCACCAGAG+GGG - chr4.1:69147671-69147690 MS.gene067638:CDS 50.0%
! GAAGGCCAAATCTCAGGTTG+AGG + chr4.1:69147664-69147683 None:intergenic 50.0%
! GAGATTTGGCCTTCACCAGA+GGG - chr4.1:69147670-69147689 MS.gene067638:CDS 50.0%
! TGAGATTTGGCCTTCACCAG+AGG - chr4.1:69147669-69147688 MS.gene067638:CDS 50.0%
!! TTGATGGACTCAATGGTGGC+TGG - chr4.1:69148084-69148103 MS.gene067638:CDS 50.0%
CACAGGCTTCAATGCCACAG+AGG + chr4.1:69147618-69147637 None:intergenic 55.0%
CACCACCTCCAACAGCATCT+AGG - chr4.1:69147983-69148002 MS.gene067638:CDS 55.0%
CTAGATGCTGTTGGAGGTGG+TGG + chr4.1:69147985-69148004 None:intergenic 55.0%
CTCCTAGATGCTGTTGGAGG+TGG + chr4.1:69147988-69148007 None:intergenic 55.0%
GCTGAACTTAGCACCCTCTG+TGG - chr4.1:69147601-69147620 MS.gene067638:CDS 55.0%
! GATTTGGCCTTCACCAGAGG+GGG - chr4.1:69147672-69147691 MS.gene067638:CDS 55.0%
AGCACAGATTGGACCCCCTC+TGG + chr4.1:69147688-69147707 None:intergenic 60.0%
GATTGGACCCCCTCTGGTGA+AGG + chr4.1:69147682-69147701 None:intergenic 60.0%
GTGCACGAGACAGTGCCCTT+TGG - chr4.1:69148111-69148130 MS.gene067638:CDS 60.0%
! GATGCTGTTGGAGGTGGTGG+TGG + chr4.1:69147982-69148001 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 69147505 69148173 69147505 ID=MS.gene067638
chr4.1 mRNA 69147505 69148173 69147505 ID=MS.gene067638.t1;Parent=MS.gene067638
chr4.1 exon 69147505 69148173 69147505 ID=MS.gene067638.t1.exon1;Parent=MS.gene067638.t1
chr4.1 CDS 69147505 69148173 69147505 ID=cds.MS.gene067638.t1;Parent=MS.gene067638.t1
Gene Sequence

>MS.gene067638

ATGGCTAGAAGTAAGGTTAAACTCGCCTTCATTGTCAATGATGCTGCAAGGAAAGCAACATACAAAAAAAGAACAAAGGGTCTATTGAAAAAGGTTGCTGAACTTAGCACCCTCTGTGGCATTGAAGCCTGTGCCATAGTGTATGGCTCTTATGAGCCTCAACCTGAGATTTGGCCTTCACCAGAGGGGGTCCAATCTGTGCTCTCAAAATTCATGACGATGCACGAGTTTCAAAAGTGCAAGAAAATGCTGAACCAAGAGACTTTCTTGACACAAAGGATTCTGAAGGCTGAAGAGAAATTGAAGAAACAAAGAAAAGAAAATAGGGAGCAAGAGATGACAATACTCATGTCTCATTGTCTAAATGAAGGTAGAGTTGTGCACGACAATATGTCAACGGTTGATTTGAGTTATCTTACTTGGTTGATTGACCATAATTTGAAGGACATTGGTAGACGTTTGGCGGCAACAGTGCCACCACCACCTCCAACAGCATCTAGGAGTGAGGAAATGGAAATTGTGGGTCATGGCCATGTTGGGATACCTATTAATGATGATGAAATTATGCAAAGTCAATTATTGATGGACTCAATGGTGGCTGGTAATGTGCACGAGACAGTGCCCTTTGGTGAGATCAATTATGGAGTTTGGCCCGATTTACTACCTTGA
Protein sequence

>MS.gene067638.t1

MARSKVKLAFIVNDAARKATYKKRTKGLLKKVAELSTLCGIEACAIVYGSYEPQPEIWPSPEGVQSVLSKFMTMHEFQKCKKMLNQETFLTQRILKAEEKLKKQRKENREQEMTILMSHCLNEGRVVHDNMSTVDLSYLTWLIDHNLKDIGRRLAATVPPPPPTASRSEEMEIVGHGHVGIPINDDEIMQSQLLMDSMVAGNVHETVPFGEINYGVWPDLLP