AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene48721

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene48721.t1 MTR_4g031910 73.077 234 46 2 1 222 1 229 1.40e-115 329
MS.gene48721.t1 MTR_4g032290 69.262 244 40 2 1 222 1 231 5.40e-110 315
MS.gene48721.t1 MTR_4g032620 58.442 231 87 1 1 222 1 231 8.02e-95 276
MS.gene48721.t1 MTR_8g036130 57.085 247 81 4 1 222 1 247 3.31e-89 263
MS.gene48721.t1 MTR_4g032260 80.255 157 31 0 1 157 1 157 2.98e-81 239
MS.gene48721.t1 MTR_3g065100 49.793 241 96 4 1 219 1 238 1.55e-66 205
MS.gene48721.t1 MTR_3g466980 46.121 232 100 5 1 218 1 221 7.95e-65 200
MS.gene48721.t1 MTR_2g035610 72.131 122 34 0 1 122 1 122 6.91e-51 161
MS.gene48721.t1 MTR_5g075380 47.742 155 80 1 1 155 1 154 6.25e-46 150
MS.gene48721.t1 MTR_4g032270 55.474 137 46 2 94 222 2 131 7.55e-46 149
MS.gene48721.t1 MTR_3g466830 49.007 151 76 1 3 153 2 151 1.14e-45 149
MS.gene48721.t1 MTR_4g063790 45.455 154 84 0 1 154 1 154 1.74e-45 149
MS.gene48721.t1 MTR_3g467080 43.590 156 88 0 1 156 1 156 3.18e-43 143
MS.gene48721.t1 MTR_3g031100 35.268 224 133 4 1 219 1 217 7.23e-43 145
MS.gene48721.t1 MTR_5g047580 46.154 156 82 2 1 156 1 154 5.98e-41 137
MS.gene48721.t1 MTR_3g466890 46.053 152 81 1 3 154 2 152 1.26e-40 136
MS.gene48721.t1 MTR_2g016210 39.560 182 108 2 1 180 1 182 2.28e-40 138
MS.gene48721.t1 MTR_1g077390 42.308 156 88 2 1 156 1 154 2.68e-37 128
MS.gene48721.t1 MTR_1g090783 42.208 154 87 2 3 156 2 153 1.51e-35 123
MS.gene48721.t1 MTR_3g465410 44.444 126 70 0 29 154 1 126 7.01e-35 121
MS.gene48721.t1 MTR_1g077320 44.231 156 85 2 1 156 1 154 7.47e-35 122
MS.gene48721.t1 MTR_7g011950 43.590 156 86 2 1 156 1 154 2.55e-34 120
MS.gene48721.t1 MTR_4g028720 44.231 156 85 2 1 156 1 154 3.49e-34 120
MS.gene48721.t1 MTR_1g084950 44.872 156 84 2 1 156 1 154 1.84e-33 118
MS.gene48721.t1 MTR_1g090710 38.961 154 93 1 1 154 1 153 2.56e-33 117
MS.gene48721.t1 MTR_1g090697 40.667 150 87 2 1 150 1 148 9.36e-33 116
MS.gene48721.t1 MTR_1g077300 43.590 156 84 2 1 156 1 152 2.76e-32 115
MS.gene48721.t1 MTR_4g028800 77.143 70 14 1 1 70 1 68 4.16e-31 109
MS.gene48721.t1 MTR_3g031240 34.615 156 102 0 1 156 1 156 1.07e-30 112
MS.gene48721.t1 MTR_7g055800 50.427 117 30 2 1 117 1 89 4.51e-29 104
MS.gene48721.t1 MTR_3g466900 41.463 123 71 1 32 154 2 123 1.80e-28 104
MS.gene48721.t1 MTR_2g035580 38.217 157 96 1 1 157 1 156 3.60e-26 99.4
MS.gene48721.t1 MTR_3g466930 39.024 123 74 1 32 154 2 123 4.38e-26 98.6
MS.gene48721.t1 MTR_7g055790 52.252 111 35 1 1 111 59 151 6.67e-26 98.6
MS.gene48721.t1 MTR_7g106510 39.370 127 77 0 3 129 6 132 1.33e-24 101
MS.gene48721.t1 MTR_4g019670 40.157 127 76 0 3 129 6 132 2.42e-24 100
MS.gene48721.t1 MTR_7g055940 49.057 106 26 2 1 106 1 78 9.31e-24 90.9
MS.gene48721.t1 MTR_5g047560 36.538 156 81 3 1 156 1 138 3.38e-23 91.3
MS.gene48721.t1 MTR_3g093900 31.690 142 97 0 3 144 6 147 1.07e-21 93.2
MS.gene48721.t1 MTR_2g035590 58.025 81 34 0 74 154 1 81 1.64e-19 80.5
MS.gene48721.t1 MTR_1g114730 31.858 113 70 3 1 107 1 112 3.06e-13 68.2
MS.gene48721.t1 MTR_6g018920 32.743 113 69 4 1 107 1 112 4.47e-13 67.4
MS.gene48721.t1 MTR_6g005450 33.628 113 68 4 1 107 1 112 3.03e-12 65.1
MS.gene48721.t1 MTR_4g084780 38.739 111 52 2 74 168 1 111 1.17e-11 60.8
MS.gene48721.t1 MTR_6g005440 35.398 113 66 3 1 107 1 112 3.73e-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.gene48721.t1 AT5G48670 55.844 154 67 1 1 154 1 153 1.82e-46 156
MS.gene48721.t1 AT1G65330 42.246 187 94 3 3 176 2 187 9.55e-41 140
MS.gene48721.t1 AT5G26630 45.026 191 94 2 1 181 1 190 2.56e-40 137
MS.gene48721.t1 AT1G65300 46.053 152 81 1 3 154 2 152 3.33e-40 139
MS.gene48721.t1 AT5G26650 36.667 210 114 4 5 204 3 203 1.65e-35 129
MS.gene48721.t1 AT5G27960 40.476 168 89 3 5 162 3 169 5.12e-35 127
MS.gene48721.t1 AT1G31630 36.905 168 95 3 3 161 2 167 5.41e-34 124
MS.gene48721.t1 AT1G31640 39.735 151 89 2 3 153 2 150 3.43e-32 122
MS.gene48721.t1 AT3G05860 37.975 158 97 1 1 158 1 157 6.37e-31 113
MS.gene48721.t1 AT3G05860 37.975 158 97 1 1 158 1 157 1.10e-30 114
MS.gene48721.t1 AT3G05860 37.975 158 97 1 1 158 1 157 1.30e-30 114
MS.gene48721.t1 AT5G27810 55.914 93 41 0 29 121 1 93 2.40e-30 108
MS.gene48721.t1 AT2G28700 37.423 163 97 2 1 161 1 160 2.28e-29 112
MS.gene48721.t1 AT1G22590 32.099 162 106 1 1 162 1 158 2.20e-26 100
MS.gene48721.t1 AT5G26580 34.416 154 86 2 1 154 1 139 1.15e-23 97.1
MS.gene48721.t1 AT5G06500 35.669 157 99 2 1 157 1 155 6.08e-23 93.2
MS.gene48721.t1 AT2G40210 37.984 129 79 1 1 129 1 128 1.22e-17 80.9
MS.gene48721.t1 AT5G58890 37.795 127 68 5 6 123 6 130 3.36e-15 73.2
MS.gene48721.t1 AT5G55690 42.308 78 38 2 1 71 1 78 2.55e-12 65.1
MS.gene48721.t1 AT5G55690 42.308 78 38 2 1 71 1 78 2.55e-12 65.1
MS.gene48721.t1 AT5G27090 34.444 90 58 1 7 95 23 112 6.97e-11 59.7
MS.gene48721.t1 AT5G27944 39.726 73 43 1 24 95 41 113 9.70e-11 59.7

Find 58 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAACAAAGAAAAGAAAAT+AGG 0.231520 4.4:-72120691 MS.gene48721:CDS
CCCTTTGGTGAGATCAATTA+TGG 0.234667 4.4:-72120374 MS.gene48721:CDS
TACCAATGTCCTTCAAATTA+TGG 0.254451 4.4:+72120564 None:intergenic
ATAATTTCATCATCATTAAT+AGG 0.285530 4.4:+72120452 None:intergenic
GTGAGATCAATTATGGAGTT+TGG 0.309548 4.4:-72120367 MS.gene48721:CDS
AACAAAGGGTCTATTGAAAA+AGG 0.314581 4.4:-72120924 MS.gene48721:CDS
ATGAGCCTCAACCTGAGATT+TGG 0.345571 4.4:-72120844 MS.gene48721:CDS
AACATCTAGGAGTGAGGAAA+TGG 0.347038 4.4:-72120504 MS.gene48721:CDS
ATCCTTCAAGGTAGTAAATC+AGG 0.372648 4.4:+72120344 None:intergenic
TATGCAAAGTCAATTATTGA+TGG 0.385590 4.4:-72120432 MS.gene48721:CDS
TCCTCACTCCTAGATGTTGT+TGG 0.401049 4.4:+72120509 None:intergenic
GAAGGACATTGGTAGACGTT+TGG 0.410243 4.4:-72120555 MS.gene48721:CDS
GAAACAAAGAAAAGAAAATA+GGG 0.419680 4.4:-72120690 MS.gene48721:CDS
GGCCTGATTTACTACCTTGA+AGG 0.422090 4.4:-72120346 None:intergenic
AGTGAGGAAATGGGAATTGT+GGG 0.443118 4.4:-72120494 MS.gene48721:CDS
CTAGATGTTGTTGGAGGTGG+TGG 0.444811 4.4:+72120518 None:intergenic
GTTGATTGACCATAATTTGA+AGG 0.445081 4.4:-72120573 MS.gene48721:CDS
TTGTGGGTCATGGCCATGTT+GGG 0.452922 4.4:-72120478 MS.gene48721:CDS
CACAACCATGGCTAGAAGTA+AGG 0.457305 4.4:-72121002 None:intergenic
CTCCTAGATGTTGTTGGAGG+TGG 0.461559 4.4:+72120515 None:intergenic
TCTGGTGAAGGCCAAATCTC+AGG 0.467267 4.4:+72120833 None:intergenic
CTCATAAGAGCCATACACTA+TGG 0.467809 4.4:+72120862 None:intergenic
ATTGTGGGTCATGGCCATGT+TGG 0.468248 4.4:-72120479 MS.gene48721:CDS
TCAATTATTGATGGACTCAA+TGG 0.482426 4.4:-72120423 MS.gene48721:CDS
TTGATTTGAGTTATCTTACT+TGG 0.482489 4.4:-72120595 MS.gene48721:CDS
CTTGACACAAAGGATTCTGA+AGG 0.491635 4.4:-72120729 MS.gene48721:CDS
TGCAGCATCATTGACAATGA+AGG 0.502295 4.4:+72120970 None:intergenic
GATGTTGTTGGAGGTGGTGG+TGG 0.505459 4.4:+72120521 None:intergenic
TCACTCCTAGATGTTGTTGG+AGG 0.510768 4.4:+72120512 None:intergenic
TTTGTGTCAAGAAAGTCTCT+TGG 0.512375 4.4:+72120741 None:intergenic
GAGTGAGGAAATGGGAATTG+TGG 0.516317 4.4:-72120495 MS.gene48721:CDS
GACCATAATTTGAAGGACAT+TGG 0.517963 4.4:-72120566 MS.gene48721:CDS
GGACATTGGTAGACGTTTGG+CGG 0.524285 4.4:-72120552 MS.gene48721:CDS
ACATCTAGGAGTGAGGAAAT+GGG 0.532509 4.4:-72120503 MS.gene48721:CDS
CACCACCTCCAACAACATCT+AGG 0.540352 4.4:-72120517 MS.gene48721:CDS
ATGTCTCATTGTCTCAATGA+AGG 0.542205 4.4:-72120647 MS.gene48721:CDS
CCATAATTGATCTCACCAAA+GGG 0.558369 4.4:+72120374 None:intergenic
GAAGCCTGTGCCATAGTGTA+TGG 0.560968 4.4:-72120872 MS.gene48721:CDS
GAGATTTGGCCTTCACCAGA+GGG 0.565461 4.4:-72120830 MS.gene48721:CDS
TTTAACCTTACTTCTAGCCA+TGG 0.572129 4.4:+72120997 None:intergenic
GATTTGGCCTTCACCAGAGG+GGG 0.573799 4.4:-72120828 MS.gene48721:CDS
TCCATAATTGATCTCACCAA+AGG 0.580970 4.4:+72120373 None:intergenic
GTGCACGAGACAGTGCCCTT+TGG 0.582311 4.4:-72120389 MS.gene48721:CDS
AAGAGACTTTCTTGACACAA+AGG 0.587821 4.4:-72120739 MS.gene48721:CDS
CATTAATAGGTATCCCAACA+TGG 0.589301 4.4:+72120465 None:intergenic
GAAGGCCAAATCTCAGGTTG+AGG 0.598100 4.4:+72120839 None:intergenic
ACAGGCTTCAATGCCACAGA+GGG 0.601811 4.4:+72120886 None:intergenic
TTGATGGACTCAATGGTGGC+TGG 0.607204 4.4:-72120416 MS.gene48721:CDS
TGAGATTTGGCCTTCACCAG+AGG 0.614269 4.4:-72120831 MS.gene48721:CDS
GAAATGGGAATTGTGGGTCA+TGG 0.616732 4.4:-72120488 MS.gene48721:CDS
AGATTTGGCCTTCACCAGAG+GGG 0.650878 4.4:-72120829 MS.gene48721:CDS
TCCAACAACATCTAGGAGTG+AGG 0.651992 4.4:-72120510 MS.gene48721:CDS
TCATTGTCAATGATGCTGCA+AGG 0.652548 4.4:-72120967 MS.gene48721:CDS
AGAGCCATACACTATGGCAC+AGG 0.656790 4.4:+72120868 None:intergenic
ATTATTGATGGACTCAATGG+TGG 0.666274 4.4:-72120420 MS.gene48721:CDS
GCTGAACTTAGCACCCTCTG+TGG 0.677042 4.4:-72120899 MS.gene48721:CDS
TGTGCACGACAATATGTCAA+CGG 0.688304 4.4:-72120618 MS.gene48721:CDS
CACAGGCTTCAATGCCACAG+AGG 0.696692 4.4:+72120885 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAATTTCATCATCATTAAT+AGG + chr4.4:72120895-72120914 None:intergenic 15.0%
!! AACATACAAAAAAAGAACAA+AGG - chr4.4:72120405-72120424 MS.gene48721:CDS 20.0%
!! ACATACAAAAAAAGAACAAA+GGG - chr4.4:72120406-72120425 MS.gene48721:CDS 20.0%
!! AGAAACAAAGAAAAGAAAAT+AGG - chr4.4:72120653-72120672 MS.gene48721:CDS 20.0%
!! GAAACAAAGAAAAGAAAATA+GGG - chr4.4:72120654-72120673 MS.gene48721:CDS 20.0%
! TATGCAAAGTCAATTATTGA+TGG - chr4.4:72120912-72120931 MS.gene48721:CDS 25.0%
!! TTGATTTGAGTTATCTTACT+TGG - chr4.4:72120749-72120768 MS.gene48721:CDS 25.0%
AACAAAGGGTCTATTGAAAA+AGG - chr4.4:72120420-72120439 MS.gene48721:CDS 30.0%
GTTGATTGACCATAATTTGA+AGG - chr4.4:72120771-72120790 MS.gene48721:CDS 30.0%
TACCAATGTCCTTCAAATTA+TGG + chr4.4:72120783-72120802 None:intergenic 30.0%
!! TCAATTATTGATGGACTCAA+TGG - chr4.4:72120921-72120940 MS.gene48721:CDS 30.0%
AAGAGACTTTCTTGACACAA+AGG - chr4.4:72120605-72120624 MS.gene48721:CDS 35.0%
ATGTCTCATTGTCTCAATGA+AGG - chr4.4:72120697-72120716 MS.gene48721:CDS 35.0%
CATTAATAGGTATCCCAACA+TGG + chr4.4:72120882-72120901 None:intergenic 35.0%
CCATAATTGATCTCACCAAA+GGG + chr4.4:72120973-72120992 None:intergenic 35.0%
GACCATAATTTGAAGGACAT+TGG - chr4.4:72120778-72120797 MS.gene48721:CDS 35.0%
GTGAGATCAATTATGGAGTT+TGG - chr4.4:72120977-72120996 MS.gene48721:CDS 35.0%
TCCATAATTGATCTCACCAA+AGG + chr4.4:72120974-72120993 None:intergenic 35.0%
TTTGTGTCAAGAAAGTCTCT+TGG + chr4.4:72120606-72120625 None:intergenic 35.0%
!! ATTATTGATGGACTCAATGG+TGG - chr4.4:72120924-72120943 MS.gene48721:CDS 35.0%
!! TGAATTTTGAGAGCACAGAT+TGG + chr4.4:72120543-72120562 None:intergenic 35.0%
AACATCTAGGAGTGAGGAAA+TGG - chr4.4:72120840-72120859 MS.gene48721:CDS 40.0%
ACATCTAGGAGTGAGGAAAT+GGG - chr4.4:72120841-72120860 MS.gene48721:CDS 40.0%
AGTGAGGAAATGGGAATTGT+GGG - chr4.4:72120850-72120869 MS.gene48721:CDS 40.0%
CCCTTTGGTGAGATCAATTA+TGG - chr4.4:72120970-72120989 MS.gene48721:CDS 40.0%
CTCATAAGAGCCATACACTA+TGG + chr4.4:72120485-72120504 None:intergenic 40.0%
CTTGACACAAAGGATTCTGA+AGG - chr4.4:72120615-72120634 MS.gene48721:CDS 40.0%
TCATTGTCAATGATGCTGCA+AGG - chr4.4:72120377-72120396 MS.gene48721:CDS 40.0%
TGCAGCATCATTGACAATGA+AGG + chr4.4:72120377-72120396 None:intergenic 40.0%
TGTGCACGACAATATGTCAA+CGG - chr4.4:72120726-72120745 MS.gene48721:CDS 40.0%
ATGAGCCTCAACCTGAGATT+TGG - chr4.4:72120500-72120519 MS.gene48721:CDS 45.0%
GAAATGGGAATTGTGGGTCA+TGG - chr4.4:72120856-72120875 MS.gene48721:CDS 45.0%
GAAGGACATTGGTAGACGTT+TGG - chr4.4:72120789-72120808 MS.gene48721:CDS 45.0%
GAGTGAGGAAATGGGAATTG+TGG - chr4.4:72120849-72120868 MS.gene48721:CDS 45.0%
TCACTCCTAGATGTTGTTGG+AGG + chr4.4:72120835-72120854 None:intergenic 45.0%
TCCAACAACATCTAGGAGTG+AGG - chr4.4:72120834-72120853 MS.gene48721:CDS 45.0%
TCCTCACTCCTAGATGTTGT+TGG + chr4.4:72120838-72120857 None:intergenic 45.0%
ACAGGCTTCAATGCCACAGA+GGG + chr4.4:72120461-72120480 None:intergenic 50.0%
AGAGCCATACACTATGGCAC+AGG + chr4.4:72120479-72120498 None:intergenic 50.0%
ATTGTGGGTCATGGCCATGT+TGG - chr4.4:72120865-72120884 MS.gene48721:CDS 50.0%
CACCACCTCCAACAACATCT+AGG - chr4.4:72120827-72120846 MS.gene48721:CDS 50.0%
CTAGATGTTGTTGGAGGTGG+TGG + chr4.4:72120829-72120848 None:intergenic 50.0%
CTCCTAGATGTTGTTGGAGG+TGG + chr4.4:72120832-72120851 None:intergenic 50.0%
GAAGCCTGTGCCATAGTGTA+TGG - chr4.4:72120472-72120491 MS.gene48721:CDS 50.0%
GGACATTGGTAGACGTTTGG+CGG - chr4.4:72120792-72120811 MS.gene48721:CDS 50.0%
TCTGGTGAAGGCCAAATCTC+AGG + chr4.4:72120514-72120533 None:intergenic 50.0%
TTGTGGGTCATGGCCATGTT+GGG - chr4.4:72120866-72120885 MS.gene48721:CDS 50.0%
! AGATTTGGCCTTCACCAGAG+GGG - chr4.4:72120515-72120534 MS.gene48721:CDS 50.0%
! GAAGGCCAAATCTCAGGTTG+AGG + chr4.4:72120508-72120527 None:intergenic 50.0%
! GAGATTTGGCCTTCACCAGA+GGG - chr4.4:72120514-72120533 MS.gene48721:CDS 50.0%
! TGAGATTTGGCCTTCACCAG+AGG - chr4.4:72120513-72120532 MS.gene48721:CDS 50.0%
!! TTGATGGACTCAATGGTGGC+TGG - chr4.4:72120928-72120947 MS.gene48721:CDS 50.0%
CACAGGCTTCAATGCCACAG+AGG + chr4.4:72120462-72120481 None:intergenic 55.0%
GCTGAACTTAGCACCCTCTG+TGG - chr4.4:72120445-72120464 MS.gene48721:CDS 55.0%
! GATGTTGTTGGAGGTGGTGG+TGG + chr4.4:72120826-72120845 None:intergenic 55.0%
! GATTTGGCCTTCACCAGAGG+GGG - chr4.4:72120516-72120535 MS.gene48721:CDS 55.0%
AGCACAGATTGGACCCCCTC+TGG + chr4.4:72120532-72120551 None:intergenic 60.0%
GATTGGACCCCCTCTGGTGA+AGG + chr4.4:72120526-72120545 None:intergenic 60.0%
GTGCACGAGACAGTGCCCTT+TGG - chr4.4:72120955-72120974 MS.gene48721:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 72120349 72121017 72120349 ID=MS.gene48721
chr4.4 mRNA 72120349 72121017 72120349 ID=MS.gene48721.t1;Parent=MS.gene48721
chr4.4 exon 72120349 72121017 72120349 ID=MS.gene48721.t1.exon1;Parent=MS.gene48721.t1
chr4.4 CDS 72120349 72121017 72120349 ID=cds.MS.gene48721.t1;Parent=MS.gene48721.t1
Gene Sequence

>MS.gene48721

ATGGCTAGAAGTAAGGTTAAACTCGCCTTCATTGTCAATGATGCTGCAAGGAAAGCAACATACAAAAAAAGAACAAAGGGTCTATTGAAAAAGGTTGCTGAACTTAGCACCCTCTGTGGCATTGAAGCCTGTGCCATAGTGTATGGCTCTTATGAGCCTCAACCTGAGATTTGGCCTTCACCAGAGGGGGTCCAATCTGTGCTCTCAAAATTCATGACGATGCACGAGTTTCAAAAGTGCAAGAAAATGCTGAACCAAGAGACTTTCTTGACACAAAGGATTCTGAAGGCTGAAGAGAAATTGAAGAAACAAAGAAAAGAAAATAGGGAGCAAGAGATGACAATACTCATGTCTCATTGTCTCAATGAAGGTAGAGTTGTGCACGACAATATGTCAACGGTTGATTTGAGTTATCTTACTTGGTTGATTGACCATAATTTGAAGGACATTGGTAGACGTTTGGCGGCAACAGTGCCACCACCACCTCCAACAACATCTAGGAGTGAGGAAATGGGAATTGTGGGTCATGGCCATGTTGGGATACCTATTAATGATGATGAAATTATGCAAAGTCAATTATTGATGGACTCAATGGTGGCTGGTAATGTGCACGAGACAGTGCCCTTTGGTGAGATCAATTATGGAGTTTGGCCTGATTTACTACCTTGA
Protein sequence

>MS.gene48721.t1

MARSKVKLAFIVNDAARKATYKKRTKGLLKKVAELSTLCGIEACAIVYGSYEPQPEIWPSPEGVQSVLSKFMTMHEFQKCKKMLNQETFLTQRILKAEEKLKKQRKENREQEMTILMSHCLNEGRVVHDNMSTVDLSYLTWLIDHNLKDIGRRLAATVPPPPPTTSRSEEMGIVGHGHVGIPINDDEIMQSQLLMDSMVAGNVHETVPFGEINYGVWPDLLP