AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene38068

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene38068.t1 MTR_0283s0050 90.826 109 10 0 37 145 60 168 2.01e-69 211
MS.gene38068.t1 MTR_5g097530 90.826 109 10 0 37 145 60 168 2.58e-69 211
MS.gene38068.t1 MTR_3g056010 66.972 109 36 0 37 145 63 171 4.63e-52 167
MS.gene38068.t1 MTR_3g056025 66.972 109 36 0 37 145 63 171 5.93e-52 167
MS.gene38068.t1 MTR_7g029020 66.055 109 37 0 37 145 63 171 6.92e-52 167
MS.gene38068.t1 MTR_3g099940 66.972 109 36 0 37 145 64 172 3.90e-51 165
MS.gene38068.t1 MTR_5g094390 66.981 106 35 0 38 143 65 170 1.42e-50 161
MS.gene38068.t1 MTR_5g094390 65.741 108 37 0 38 145 65 172 2.14e-50 163
MS.gene38068.t1 MTR_5g049520 82.143 84 15 0 38 121 80 163 1.59e-43 141
MS.gene38068.t1 MTR_5g049560 65.517 116 11 2 37 152 183 269 2.16e-41 139
MS.gene38068.t1 MTR_3g076650 56.311 103 45 0 43 145 69 171 8.71e-37 132
MS.gene38068.t1 MTR_3g095680 45.000 140 61 3 12 145 81 210 1.74e-33 124
MS.gene38068.t1 MTR_3g095680 45.000 140 61 3 12 145 49 178 2.88e-33 123
MS.gene38068.t1 MTR_4g028830 45.000 140 61 3 12 145 40 169 1.51e-32 121
MS.gene38068.t1 MTR_8g093090 42.857 140 64 3 12 145 49 178 1.90e-32 121
MS.gene38068.t1 MTR_8g093090 42.857 140 64 3 12 145 67 196 1.94e-32 121
MS.gene38068.t1 MTR_8g027265 44.203 138 65 3 12 145 54 183 2.93e-32 120
MS.gene38068.t1 MTR_3g080960 45.000 140 61 3 12 145 36 165 7.93e-32 119
MS.gene38068.t1 MTR_5g075220 49.515 103 52 0 43 145 70 172 1.28e-31 118
MS.gene38068.t1 MTR_1g103850 50.485 103 51 0 43 145 67 169 2.55e-31 118
MS.gene38068.t1 MTR_6g016260 50.485 103 51 0 43 145 49 151 9.42e-31 116
MS.gene38068.t1 MTR_7g114680 48.544 103 53 0 43 145 53 155 6.07e-30 114
MS.gene38068.t1 MTR_7g114680 48.544 103 53 0 43 145 67 169 6.48e-30 114
MS.gene38068.t1 MTR_7g072860 47.573 103 54 0 43 145 71 173 8.33e-29 110
MS.gene38068.t1 MTR_7g072640 47.573 103 54 0 43 145 71 173 8.33e-29 110
MS.gene38068.t1 MTR_1g081330 48.544 103 53 0 43 145 67 169 1.10e-28 110
MS.gene38068.t1 MTR_8g093090 50.000 94 47 0 52 145 3 96 3.29e-28 108
MS.gene38068.t1 MTR_0068s0070 77.049 61 12 1 61 121 61 119 6.55e-28 100
MS.gene38068.t1 MTR_1g081330 56.410 78 34 0 68 145 7 84 6.14e-25 99.8
MS.gene38068.t1 MTR_5g097540 58.242 91 14 2 32 122 232 298 2.20e-24 95.9
MS.gene38068.t1 MTR_3g048687 42.424 66 32 1 75 140 32 91 2.77e-12 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene38068.t1 AT5G55560 66.055 109 37 0 37 145 68 176 1.28e-50 164
MS.gene38068.t1 AT3G48260 55.340 103 46 0 43 145 65 167 9.93e-34 124
MS.gene38068.t1 AT1G49160 44.295 149 66 4 3 145 18 155 3.09e-33 122
MS.gene38068.t1 AT3G51630 51.456 103 50 0 43 145 68 170 5.92e-33 122
MS.gene38068.t1 AT3G51630 51.456 103 50 0 43 145 68 170 5.92e-33 122
MS.gene38068.t1 AT1G49160 45.390 141 61 3 11 145 43 173 1.50e-32 120
MS.gene38068.t1 AT3G18750 44.928 138 64 2 12 145 44 173 1.86e-32 120
MS.gene38068.t1 AT3G18750 44.928 138 64 2 12 145 44 173 1.86e-32 120
MS.gene38068.t1 AT3G18750 44.928 138 64 2 12 145 44 173 1.86e-32 120
MS.gene38068.t1 AT1G49160 45.390 141 61 3 11 145 90 220 2.72e-32 119
MS.gene38068.t1 AT1G49160 45.390 141 61 3 11 145 90 220 3.14e-32 120
MS.gene38068.t1 AT5G28080 50.485 103 51 0 43 145 31 133 2.36e-31 117
MS.gene38068.t1 AT5G28080 50.485 103 51 0 43 145 68 170 3.24e-31 117
MS.gene38068.t1 AT3G18750 44.928 138 64 2 12 145 44 173 3.93e-31 116
MS.gene38068.t1 AT3G18750 44.928 138 64 2 12 145 44 173 3.93e-31 116
MS.gene38068.t1 AT3G18750 44.928 138 64 2 12 145 26 155 4.81e-31 117
MS.gene38068.t1 AT5G41990 50.485 103 51 0 43 145 72 174 2.31e-30 115
MS.gene38068.t1 AT5G58350 49.524 105 53 0 41 145 60 164 6.90e-30 113
MS.gene38068.t1 AT3G04910 48.544 103 53 0 43 145 44 146 1.51e-29 113
MS.gene38068.t1 AT3G04910 48.544 103 53 0 43 145 67 169 1.68e-29 112
MS.gene38068.t1 AT1G64630 49.515 103 52 0 43 145 59 161 4.79e-29 111
MS.gene38068.t1 AT3G48260 66.197 71 24 0 75 145 2 72 1.01e-28 109
MS.gene38068.t1 AT5G28080 58.974 78 32 0 68 145 7 84 9.42e-28 106
MS.gene38068.t1 AT5G28080 58.974 78 32 0 68 145 7 84 9.42e-28 106
MS.gene38068.t1 AT5G28080 58.974 78 32 0 68 145 7 84 9.42e-28 106
MS.gene38068.t1 AT5G28080 58.974 78 32 0 68 145 7 84 9.42e-28 106
MS.gene38068.t1 AT5G28080 58.974 78 32 0 68 145 7 84 9.42e-28 106
MS.gene38068.t1 AT3G22420 48.454 97 50 0 49 145 73 169 2.70e-27 106
MS.gene38068.t1 AT3G22420 48.454 97 50 0 49 145 73 169 2.86e-27 106
MS.gene38068.t1 AT3G22420 48.454 97 50 0 49 145 73 169 3.09e-27 106
MS.gene38068.t1 AT3G22420 48.454 97 50 0 49 145 73 169 3.12e-27 106
MS.gene38068.t1 AT3G22420 48.454 97 50 0 49 145 144 240 3.40e-27 106
MS.gene38068.t1 AT3G22420 48.454 97 50 0 49 145 144 240 3.49e-27 106
MS.gene38068.t1 AT1G49160 58.696 46 19 0 100 145 1 46 5.82e-14 68.2
MS.gene38068.t1 AT1G49160 58.696 46 19 0 100 145 1 46 5.82e-14 68.2
MS.gene38068.t1 AT1G49160 58.696 46 19 0 100 145 1 46 5.82e-14 68.2
MS.gene38068.t1 AT3G04910 62.791 43 16 0 103 145 1 43 2.01e-13 67.0

Find 29 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAGTAATATCTTTGTTAA+TGG 0.174729 5.1:+77864180 MS.gene38068:CDS
ATTACCAAGGTTTGTACTTC+TGG 0.182706 5.1:+77864024 MS.gene38068:CDS
CTGGGAACCTTAGGGATTAT+AGG 0.257212 5.1:+77864043 MS.gene38068:CDS
ACATCGACATGTTTCGATTA+AGG 0.280828 5.1:+77864071 MS.gene38068:CDS
GCAGTAATATCTTTGTTAAT+GGG 0.310764 5.1:+77864181 MS.gene38068:CDS
AAGGCATTCTCAGAAGTATC+TGG 0.351632 5.1:+77863735 MS.gene38068:CDS
TTTGTACTTCTGGGAACCTT+AGG 0.351744 5.1:+77864034 MS.gene38068:CDS
TCATTGTTTGTAATAGTGTT+TGG 0.354197 5.1:+77863971 MS.gene38068:CDS
TGATTTGATGGGACATCTTA+AGG 0.360584 5.1:+77863716 MS.gene38068:CDS
CATTGGCCAGGTTAGTTTGT+TGG 0.365202 5.1:+77864206 MS.gene38068:CDS
CAGAAGTATCTGGTTGGTAT+AGG 0.387624 5.1:+77863745 MS.gene38068:CDS
TTACCAAGGTTTGTACTTCT+GGG 0.399300 5.1:+77864025 MS.gene38068:CDS
CGATTAAGGCATTTAAGAAA+TGG 0.407527 5.1:+77864085 MS.gene38068:CDS
AAGATCTCTGTGGATAATAC+AGG 0.409261 5.1:-77864154 None:intergenic
ATCTTTGTTAATGGGAACAT+TGG 0.433375 5.1:+77864189 MS.gene38068:CDS
TTGTACTTCTGGGAACCTTA+GGG 0.477408 5.1:+77864035 MS.gene38068:CDS
TGGTCGAAACAAGTTCTTGA+AGG 0.488385 5.1:+77864105 MS.gene38068:CDS
GTTTCTTCCTATAATCCCTA+AGG 0.495635 5.1:-77864050 None:intergenic
TGTTAATGGGAACATTGGCC+AGG 0.498815 5.1:+77864194 MS.gene38068:CDS
GAAACAAGTTCTTGAAGGAC+TGG 0.539787 5.1:+77864110 MS.gene38068:CDS
TATAGGCTGCTCAAAGATGA+TGG 0.552411 5.1:+77863762 MS.gene38068:CDS
TATTAATCGTCAACATTCCG+AGG 0.559787 5.1:+77863915 MS.gene38068:CDS
AAGAAACCAACAAACTAACC+TGG 0.609618 5.1:-77864212 None:intergenic
CATTCTCAGAAGTATCTGGT+TGG 0.618931 5.1:+77863739 MS.gene38068:CDS
GTTCCCAGAAGTACAAACCT+TGG 0.628989 5.1:-77864028 None:intergenic
ATTTCTGAGCAATTCAACCT+CGG 0.630456 5.1:-77863932 None:intergenic
AGATCTCTGTGGATAATACA+GGG 0.648398 5.1:-77864153 None:intergenic
GTTTGGAAAGAAGATGATCG+TGG 0.663036 5.1:+77863988 MS.gene38068:CDS
TACTGCAATTAAGATCTCTG+TGG 0.676469 5.1:-77864164 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAATATCAATTTTATTACCA+AGG + chr5.1:77864011-77864030 MS.gene38068:CDS 15.0%
!! AGAAAAATATGTGATTTGAT+GGG + chr5.1:77863705-77863724 MS.gene38068:CDS 20.0%
! CTATAACTTATAGTAATCCT+TGG + chr5.1:77863869-77863888 MS.gene38068:intron 25.0%
! CTGATAAAAATGCTATCAAA+AGG + chr5.1:77863790-77863809 MS.gene38068:CDS 25.0%
! GAGAAAAATATGTGATTTGA+TGG + chr5.1:77863704-77863723 MS.gene38068:CDS 25.0%
! GCAGTAATATCTTTGTTAAT+GGG + chr5.1:77864181-77864200 MS.gene38068:CDS 25.0%
! TCATTGTTTGTAATAGTGTT+TGG + chr5.1:77863971-77863990 MS.gene38068:CDS 25.0%
! TGCAGTAATATCTTTGTTAA+TGG + chr5.1:77864180-77864199 MS.gene38068:CDS 25.0%
!!! CTTTTGATAGCATTTTTATC+AGG - chr5.1:77863792-77863811 None:intergenic 25.0%
ATCTTTGTTAATGGGAACAT+TGG + chr5.1:77864189-77864208 MS.gene38068:CDS 30.0%
! CGATTAAGGCATTTAAGAAA+TGG + chr5.1:77864085-77864104 MS.gene38068:CDS 30.0%
AAGAAACCAACAAACTAACC+TGG - chr5.1:77864215-77864234 None:intergenic 35.0%
AAGATCTCTGTGGATAATAC+AGG - chr5.1:77864157-77864176 None:intergenic 35.0%
ACATCGACATGTTTCGATTA+AGG + chr5.1:77864071-77864090 MS.gene38068:CDS 35.0%
AGATCTCTGTGGATAATACA+GGG - chr5.1:77864156-77864175 None:intergenic 35.0%
ATTACCAAGGTTTGTACTTC+TGG + chr5.1:77864024-77864043 MS.gene38068:CDS 35.0%
ATTTCTGAGCAATTCAACCT+CGG - chr5.1:77863935-77863954 None:intergenic 35.0%
GTTTCTTCCTATAATCCCTA+AGG - chr5.1:77864053-77864072 None:intergenic 35.0%
TACTGCAATTAAGATCTCTG+TGG - chr5.1:77864167-77864186 None:intergenic 35.0%
TATTAATCGTCAACATTCCG+AGG + chr5.1:77863915-77863934 MS.gene38068:CDS 35.0%
TGATTTGATGGGACATCTTA+AGG + chr5.1:77863716-77863735 MS.gene38068:CDS 35.0%
TTACCAAGGTTTGTACTTCT+GGG + chr5.1:77864025-77864044 MS.gene38068:CDS 35.0%
GAAACAAGTTCTTGAAGGAC+TGG + chr5.1:77864110-77864129 MS.gene38068:CDS 40.0%
GTTTGGAAAGAAGATGATCG+TGG + chr5.1:77863988-77864007 MS.gene38068:CDS 40.0%
TATAGGCTGCTCAAAGATGA+TGG + chr5.1:77863762-77863781 MS.gene38068:CDS 40.0%
TGATCGTTGCTGAAATTCCA+AGG - chr5.1:77863889-77863908 None:intergenic 40.0%
TGGTCGAAACAAGTTCTTGA+AGG + chr5.1:77864105-77864124 MS.gene38068:CDS 40.0%
! TTGTACTTCTGGGAACCTTA+GGG + chr5.1:77864035-77864054 MS.gene38068:CDS 40.0%
! TTTGTACTTCTGGGAACCTT+AGG + chr5.1:77864034-77864053 MS.gene38068:CDS 40.0%
!! AAGGCATTCTCAGAAGTATC+TGG + chr5.1:77863735-77863754 MS.gene38068:CDS 40.0%
!! CAGAAGTATCTGGTTGGTAT+AGG + chr5.1:77863745-77863764 MS.gene38068:CDS 40.0%
!! CATTCTCAGAAGTATCTGGT+TGG + chr5.1:77863739-77863758 MS.gene38068:CDS 40.0%
CTGGGAACCTTAGGGATTAT+AGG + chr5.1:77864043-77864062 MS.gene38068:CDS 45.0%
TGTTAATGGGAACATTGGCC+AGG + chr5.1:77864194-77864213 MS.gene38068:CDS 45.0%
! GTTCCCAGAAGTACAAACCT+TGG - chr5.1:77864031-77864050 None:intergenic 45.0%
!! CATTGGCCAGGTTAGTTTGT+TGG + chr5.1:77864206-77864225 MS.gene38068:CDS 45.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 77863702 77864248 77863702 ID=MS.gene38068
chr5.1 mRNA 77863702 77864248 77863702 ID=MS.gene38068.t1;Parent=MS.gene38068
chr5.1 exon 77863702 77863811 77863702 ID=MS.gene38068.t1.exon1;Parent=MS.gene38068.t1
chr5.1 CDS 77863702 77863811 77863702 ID=cds.MS.gene38068.t1;Parent=MS.gene38068.t1
chr5.1 exon 77863900 77864248 77863900 ID=MS.gene38068.t1.exon2;Parent=MS.gene38068.t1
chr5.1 CDS 77863900 77864248 77863900 ID=cds.MS.gene38068.t1;Parent=MS.gene38068.t1
Gene Sequence

>MS.gene38068

ATGAGAAAAATATGTGATTTGATGGGACATCTTAAGGCATTCTCAGAAGTATCTGGTTGGTATAGGCTGCTCAAAGATGATGGCTCACCTGATAAAAATGCTATCAAAAGGTCTGCTTTAAAATGTTTGAAAATAATTTGTGATTTCGATTGCATTTAAGCATTTATCTATAACTTATAGTAATCCTTGGAATTTCAGCAACGATCATGTTCTTATTAATCGTCAACATTCCGAGGTTGAATTGCTCAGAAATCTCAGTAACAAGCACGTCATTGTTTGTAATAGTGTTTGGAAAGAAGATGATCGTGGTAATATCAATTTTATTACCAAGGTTTGTACTTCTGGGAACCTTAGGGATTATAGGAAGAAACATCGACATGTTTCGATTAAGGCATTTAAGAAATGGTCGAAACAAGTTCTTGAAGGACTGGAGTATCTTCATACACATGATCCCTGTATTATCCACAGAGATCTTAATTGCAGTAATATCTTTGTTAATGGGAACATTGGCCAGGTTAGTTTGTTGGTTTCTTATTCGACTTTCTAA
Protein sequence

>MS.gene38068.t1

MRKICDLMGHLKAFSEVSGWYRLLKDDGSPDKNAIKSNDHVLINRQHSEVELLRNLSNKHVIVCNSVWKEDDRGNINFITKVCTSGNLRDYRKKHRHVSIKAFKKWSKQVLEGLEYLHTHDPCIIHRDLNCSNIFVNGNIGQVSLLVSYSTF