AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene48665

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene48665.t1 MTR_4g032620 90.043 231 23 0 1 231 1 231 1.69e-158 438
MS.gene48665.t1 MTR_8g036130 59.514 247 84 3 1 231 1 247 7.09e-95 278
MS.gene48665.t1 MTR_4g031910 53.361 238 95 2 1 231 1 229 2.59e-78 235
MS.gene48665.t1 MTR_4g032290 55.328 244 83 4 1 231 1 231 5.72e-75 227
MS.gene48665.t1 MTR_3g065100 48.536 239 111 3 1 228 1 238 8.65e-65 201
MS.gene48665.t1 MTR_4g032260 61.935 155 59 0 1 155 1 155 7.75e-57 178
MS.gene48665.t1 MTR_3g466980 42.672 232 117 5 1 227 1 221 1.22e-55 177
MS.gene48665.t1 MTR_2g035610 67.213 122 40 0 1 122 1 122 9.28e-50 159
MS.gene48665.t1 MTR_3g466830 43.827 162 88 2 3 163 2 161 7.52e-45 147
MS.gene48665.t1 MTR_3g466890 42.767 159 88 2 3 160 2 158 1.11e-39 134
MS.gene48665.t1 MTR_5g047580 40.000 155 91 2 1 155 1 153 1.52e-38 131
MS.gene48665.t1 MTR_5g075380 41.558 154 89 1 1 154 1 153 4.09e-38 130
MS.gene48665.t1 MTR_4g063790 37.427 171 107 0 1 171 1 171 3.12e-37 128
MS.gene48665.t1 MTR_3g031100 41.935 155 90 0 1 155 1 155 5.02e-37 130
MS.gene48665.t1 MTR_2g016210 33.921 227 128 4 1 219 1 213 5.21e-36 127
MS.gene48665.t1 MTR_3g467080 37.419 155 97 0 1 155 1 155 1.95e-35 123
MS.gene48665.t1 MTR_1g090783 41.497 147 84 2 3 149 2 146 3.36e-35 122
MS.gene48665.t1 MTR_7g011950 41.558 154 88 2 1 154 1 152 5.45e-35 122
MS.gene48665.t1 MTR_1g090697 36.709 158 98 2 1 158 1 156 4.56e-33 117
MS.gene48665.t1 MTR_4g028720 40.260 154 90 2 1 154 1 152 1.73e-32 116
MS.gene48665.t1 MTR_1g077390 37.013 154 95 2 1 154 1 152 5.28e-32 114
MS.gene48665.t1 MTR_3g031240 35.976 164 101 2 1 162 1 162 5.44e-32 115
MS.gene48665.t1 MTR_4g028800 77.143 70 14 1 1 70 1 68 7.58e-32 111
MS.gene48665.t1 MTR_1g090710 34.810 158 102 1 1 158 1 157 1.37e-31 113
MS.gene48665.t1 MTR_1g084950 38.710 155 93 2 1 155 1 153 3.26e-31 112
MS.gene48665.t1 MTR_1g077320 37.013 154 95 2 1 154 1 152 7.96e-29 106
MS.gene48665.t1 MTR_3g466900 38.462 130 77 2 32 160 2 129 1.98e-28 104
MS.gene48665.t1 MTR_1g077300 40.127 157 84 3 1 154 1 150 3.34e-28 105
MS.gene48665.t1 MTR_3g466930 40.458 131 73 4 32 160 2 129 5.85e-28 103
MS.gene48665.t1 MTR_2g035580 38.710 155 94 1 1 155 1 154 4.01e-27 102
MS.gene48665.t1 MTR_7g055800 47.899 119 34 2 1 119 1 91 1.34e-26 99.0
MS.gene48665.t1 MTR_3g465410 36.496 137 87 0 29 165 1 137 1.39e-25 97.8
MS.gene48665.t1 MTR_5g047560 38.983 118 55 2 1 118 1 101 4.74e-23 91.3
MS.gene48665.t1 MTR_4g032270 45.133 113 53 3 125 231 22 131 7.53e-23 90.5
MS.gene48665.t1 MTR_7g055790 48.649 111 39 1 1 111 59 151 3.67e-22 89.0
MS.gene48665.t1 MTR_7g055940 46.667 105 28 2 1 105 1 77 4.02e-21 84.3
MS.gene48665.t1 MTR_4g019670 31.847 157 105 1 3 157 6 162 5.23e-21 91.3
MS.gene48665.t1 MTR_7g106510 31.210 157 106 1 3 157 6 162 5.60e-21 91.3
MS.gene48665.t1 MTR_3g093900 37.398 123 75 2 3 124 6 127 6.89e-19 85.1
MS.gene48665.t1 MTR_2g035590 50.562 89 44 0 74 162 1 89 5.76e-18 76.6
MS.gene48665.t1 MTR_6g018920 30.000 160 97 6 1 154 1 151 6.20e-14 70.1
MS.gene48665.t1 MTR_1g114730 35.043 117 61 4 1 103 1 116 2.67e-13 68.6
MS.gene48665.t1 MTR_6g005450 33.333 135 77 5 1 128 1 129 1.39e-12 66.2
MS.gene48665.t1 MTR_4g084780 57.143 49 21 0 74 122 1 49 3.08e-11 60.1
MS.gene48665.t1 MTR_6g005440 32.450 151 87 4 1 137 1 150 5.96e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene48665.t1 AT5G48670 52.795 161 75 1 1 161 1 160 6.63e-50 166
MS.gene48665.t1 AT1G65300 41.420 169 98 1 3 171 2 169 6.44e-40 139
MS.gene48665.t1 AT5G26630 39.234 209 121 3 1 208 1 204 3.08e-38 132
MS.gene48665.t1 AT5G26650 40.462 173 100 2 4 176 2 171 6.31e-38 135
MS.gene48665.t1 AT3G05860 41.333 150 87 1 1 150 1 149 2.95e-37 129
MS.gene48665.t1 AT5G27960 39.306 173 102 2 4 176 2 171 3.82e-37 132
MS.gene48665.t1 AT3G05860 41.333 150 87 1 1 150 1 149 7.80e-37 130
MS.gene48665.t1 AT3G05860 41.333 150 87 1 1 150 1 149 1.04e-36 130
MS.gene48665.t1 AT1G65330 41.875 160 92 1 3 162 2 160 2.29e-36 129
MS.gene48665.t1 AT5G27810 54.839 93 42 0 29 121 1 93 8.99e-33 115
MS.gene48665.t1 AT1G31630 35.220 159 101 2 3 161 2 158 1.01e-31 119
MS.gene48665.t1 AT1G31640 33.775 151 98 2 3 153 2 150 2.44e-29 114
MS.gene48665.t1 AT5G26580 36.774 155 83 2 1 155 1 140 4.91e-28 109
MS.gene48665.t1 AT2G28700 35.152 165 106 1 1 165 1 164 4.48e-27 106
MS.gene48665.t1 AT1G22590 38.614 101 62 0 1 101 1 101 4.92e-21 86.7
MS.gene48665.t1 AT2G40210 40.984 122 72 0 1 122 1 122 3.35e-19 85.5
MS.gene48665.t1 AT5G06500 30.519 154 105 1 1 154 1 152 2.34e-18 81.3
MS.gene48665.t1 AT5G58890 39.394 99 52 3 1 92 1 98 1.33e-12 66.2
MS.gene48665.t1 AT5G55690 38.298 94 51 2 1 87 1 94 3.33e-12 64.7
MS.gene48665.t1 AT5G55690 38.298 94 51 2 1 87 1 94 3.33e-12 64.7

Find 56 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGATGTCACCATTATTCA+TGG 0.300939 4.3:-67957703 None:intergenic
TTGTATCTTCAGTTTCTCTT+TGG 0.302597 4.3:-67957421 None:intergenic
ATTCATTCAAGGCAGTATAT+TGG 0.306143 4.3:-67957811 None:intergenic
TTCATTCAAGGCAGTATATT+GGG 0.306995 4.3:-67957810 None:intergenic
ATCTCTGGTTGAGGCTTGTA+TGG 0.342107 4.3:-67957279 None:intergenic
GAAGCCTGTGCCATAGTCTA+TGG 0.364166 4.3:+67957255 MS.gene48665:CDS
GGAAAGCAACATACAATAAC+AGG 0.369187 4.3:+67957181 MS.gene48665:CDS
TGGCACTACCATTGTCATCT+AGG 0.405771 4.3:+67957637 MS.gene48665:CDS
TATGCAGAGTAATATGTCAT+TGG 0.410310 4.3:+67957509 MS.gene48665:CDS
TGGTAGAAGGTTGGAAGAAG+AGG 0.420916 4.3:+67957581 MS.gene48665:CDS
ACAAGCCTCAACCAGAGATA+TGG 0.424604 4.3:+67957283 MS.gene48665:CDS
TCATTGTAAATGATGCATCT+AGG 0.432410 4.3:+67957160 MS.gene48665:CDS
ATGACAATGGTAGTGCCATT+TGG 0.432814 4.3:-67957632 None:intergenic
AGGATGGGTCATGGCCATGC+TGG 0.433216 4.3:+67957675 MS.gene48665:CDS
GTCATCTAGGAATGAGGAAA+TGG 0.438056 4.3:+67957650 MS.gene48665:CDS
AAGAGACATATATGAAAGAA+AGG 0.443744 4.3:+67957388 MS.gene48665:CDS
GAAGATGAGACGGTGCCATT+TGG 0.449628 4.3:+67957765 MS.gene48665:CDS
AAATGAAGGAGGTTGGTAGA+AGG 0.451827 4.3:+67957568 MS.gene48665:CDS
GAAGGAGGTTGGTAGAAGGT+TGG 0.465981 4.3:+67957572 MS.gene48665:CDS
TTGATTCAAAACATCTTTGT+TGG 0.470119 4.3:+67957532 MS.gene48665:CDS
TTGGAAGAAGAGGATAATAA+TGG 0.472270 4.3:+67957591 MS.gene48665:CDS
ACATGAAATTCAACTCCAAA+TGG 0.474248 4.3:+67957617 MS.gene48665:CDS
TGTGATGACGGCCATATCTC+TGG 0.481006 4.3:-67957294 None:intergenic
TTGATGGGCTTGATGATGAA+TGG 0.481425 4.3:+67957738 MS.gene48665:CDS
GAATGAGGAAATGGCAAGGA+TGG 0.494202 4.3:+67957659 MS.gene48665:CDS
CTAGGATCGACCTCGCCAAA+TGG 0.502040 4.3:-67957780 None:intergenic
GTTGATTGACCAGAAAATGA+AGG 0.505207 4.3:+67957554 MS.gene48665:CDS
ATTCATAACAATGACTGAAA+GGG 0.512113 4.3:+67957341 MS.gene48665:CDS
ATTTGGACTCCTTGTGATGA+CGG 0.513475 4.3:-67957306 None:intergenic
CTTGTATGGTCCATAGACTA+TGG 0.514753 4.3:-67957265 None:intergenic
GCTGGGATGACCATGAATAA+TGG 0.515101 4.3:+67957693 MS.gene48665:CDS
ATGTTTCAATGTCTTTCTGA+AGG 0.517577 4.3:+67957480 MS.gene48665:CDS
AATTCATAACAATGACTGAA+AGG 0.522955 4.3:+67957340 MS.gene48665:CDS
GGATGGGTCATGGCCATGCT+GGG 0.533577 4.3:+67957676 MS.gene48665:CDS
AGAGACATATATGAAAGAAA+GGG 0.542993 4.3:+67957389 MS.gene48665:CDS
GACGGCCATATCTCTGGTTG+AGG 0.560463 4.3:-67957288 None:intergenic
ACCATTGTCATCTAGGAATG+AGG 0.561090 4.3:+67957644 MS.gene48665:CDS
GACCAGAAAATGAAGGAGGT+TGG 0.561443 4.3:+67957561 MS.gene48665:CDS
AACATACAATAACAGGTGGA+AGG 0.581713 4.3:+67957188 MS.gene48665:CDS
GTGGAAGGGTCTACTGAAGA+AGG 0.590784 4.3:+67957203 MS.gene48665:CDS
AAGAGAAACTGAAGATACAA+AGG 0.595097 4.3:+67957424 MS.gene48665:CDS
GAGATATGGCCGTCATCACA+AGG 0.597681 4.3:+67957297 MS.gene48665:CDS
AATGAGGAAATGGCAAGGAT+GGG 0.618443 4.3:+67957660 MS.gene48665:CDS
GATACAAAGGCATGACAACA+AGG 0.619432 4.3:+67957437 MS.gene48665:CDS
TGGTCCATAGACTATGGCAC+AGG 0.624162 4.3:-67957259 None:intergenic
ACATACAATAACAGGTGGAA+GGG 0.624477 4.3:+67957189 MS.gene48665:CDS
GAAATGGCAAGGATGGGTCA+TGG 0.626584 4.3:+67957666 MS.gene48665:CDS
TGACAACAAGGAGAAAGAGA+TGG 0.637254 4.3:+67957449 MS.gene48665:CDS
AAGCAACATACAATAACAGG+TGG 0.643203 4.3:+67957184 MS.gene48665:CDS
GATTGACCAGAAAATGAAGG+AGG 0.644653 4.3:+67957557 MS.gene48665:CDS
TCCTCATTCCTAGATGACAA+TGG 0.648978 4.3:-67957645 None:intergenic
TATTCATGGTCATCCCAGCA+TGG 0.650127 4.3:-67957689 None:intergenic
CTAGGAATGAGGAAATGGCA+AGG 0.656106 4.3:+67957655 MS.gene48665:CDS
TGAGACGGTGCCATTTGGCG+AGG 0.664323 4.3:+67957770 MS.gene48665:CDS
TATGAACTAAGCACTCTGTG+TGG 0.701795 4.3:+67957228 MS.gene48665:CDS
GAATGGTTATGAAGATGAGA+CGG 0.707575 4.3:+67957755 MS.gene48665:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTGAAAATCAATTTTTGAT+GGG + chr4.3:67957723-67957742 MS.gene48665:CDS 15.0%
!!! CATTGAAAATCAATTTTTGA+TGG + chr4.3:67957722-67957741 MS.gene48665:CDS 20.0%
! AAGAGACATATATGAAAGAA+AGG + chr4.3:67957388-67957407 MS.gene48665:CDS 25.0%
! AATTCATAACAATGACTGAA+AGG + chr4.3:67957340-67957359 MS.gene48665:CDS 25.0%
! AGAGACATATATGAAAGAAA+GGG + chr4.3:67957389-67957408 MS.gene48665:CDS 25.0%
! ATTCATAACAATGACTGAAA+GGG + chr4.3:67957341-67957360 MS.gene48665:CDS 25.0%
! TTGATTCAAAACATCTTTGT+TGG + chr4.3:67957532-67957551 MS.gene48665:CDS 25.0%
!!! TATGAAAGAAAGGGTTTTAA+AGG + chr4.3:67957398-67957417 MS.gene48665:CDS 25.0%
AAGAGAAACTGAAGATACAA+AGG + chr4.3:67957424-67957443 MS.gene48665:CDS 30.0%
AATGATGTCACCATTATTCA+TGG - chr4.3:67957706-67957725 None:intergenic 30.0%
ACATGAAATTCAACTCCAAA+TGG + chr4.3:67957617-67957636 MS.gene48665:CDS 30.0%
AGTATATTGGGCAAAAATCT+AGG - chr4.3:67957801-67957820 None:intergenic 30.0%
ATGTTTCAATGTCTTTCTGA+AGG + chr4.3:67957480-67957499 MS.gene48665:CDS 30.0%
TATGCAGAGTAATATGTCAT+TGG + chr4.3:67957509-67957528 MS.gene48665:CDS 30.0%
TCATTGTAAATGATGCATCT+AGG + chr4.3:67957160-67957179 MS.gene48665:CDS 30.0%
TTGGAAGAAGAGGATAATAA+TGG + chr4.3:67957591-67957610 MS.gene48665:CDS 30.0%
TTGTATCTTCAGTTTCTCTT+TGG - chr4.3:67957424-67957443 None:intergenic 30.0%
!!! TGAATTTTGAGAGCACTATT+TGG - chr4.3:67957326-67957345 None:intergenic 30.0%
AACATACAATAACAGGTGGA+AGG + chr4.3:67957188-67957207 MS.gene48665:CDS 35.0%
AAGCAACATACAATAACAGG+TGG + chr4.3:67957184-67957203 MS.gene48665:CDS 35.0%
ACATACAATAACAGGTGGAA+GGG + chr4.3:67957189-67957208 MS.gene48665:CDS 35.0%
GAATGGTTATGAAGATGAGA+CGG + chr4.3:67957755-67957774 MS.gene48665:CDS 35.0%
GGAAAGCAACATACAATAAC+AGG + chr4.3:67957181-67957200 MS.gene48665:CDS 35.0%
GTTGATTGACCAGAAAATGA+AGG + chr4.3:67957554-67957573 MS.gene48665:CDS 35.0%
AATGAGGAAATGGCAAGGAT+GGG + chr4.3:67957660-67957679 MS.gene48665:CDS 40.0%
ACCATTGTCATCTAGGAATG+AGG + chr4.3:67957644-67957663 MS.gene48665:CDS 40.0%
ATTTGGACTCCTTGTGATGA+CGG - chr4.3:67957309-67957328 None:intergenic 40.0%
CTTGTATGGTCCATAGACTA+TGG - chr4.3:67957268-67957287 None:intergenic 40.0%
GATTGACCAGAAAATGAAGG+AGG + chr4.3:67957557-67957576 MS.gene48665:CDS 40.0%
GTCATCTAGGAATGAGGAAA+TGG + chr4.3:67957650-67957669 MS.gene48665:CDS 40.0%
TATGAACTAAGCACTCTGTG+TGG + chr4.3:67957228-67957247 MS.gene48665:CDS 40.0%
TCCTCATTCCTAGATGACAA+TGG - chr4.3:67957648-67957667 None:intergenic 40.0%
TGACAACAAGGAGAAAGAGA+TGG + chr4.3:67957449-67957468 MS.gene48665:CDS 40.0%
! ATGACAATGGTAGTGCCATT+TGG - chr4.3:67957635-67957654 None:intergenic 40.0%
! GATACAAAGGCATGACAACA+AGG + chr4.3:67957437-67957456 MS.gene48665:CDS 40.0%
! TACCAACCTCCTTCATTTTC+TGG - chr4.3:67957566-67957585 None:intergenic 40.0%
!! AAATGAAGGAGGTTGGTAGA+AGG + chr4.3:67957568-67957587 MS.gene48665:CDS 40.0%
!! TTGATGGGCTTGATGATGAA+TGG + chr4.3:67957738-67957757 MS.gene48665:CDS 40.0%
ACAAGCCTCAACCAGAGATA+TGG + chr4.3:67957283-67957302 MS.gene48665:CDS 45.0%
ATCTCTGGTTGAGGCTTGTA+TGG - chr4.3:67957282-67957301 None:intergenic 45.0%
CTAGGAATGAGGAAATGGCA+AGG + chr4.3:67957655-67957674 MS.gene48665:CDS 45.0%
GAATGAGGAAATGGCAAGGA+TGG + chr4.3:67957659-67957678 MS.gene48665:CDS 45.0%
GACCAGAAAATGAAGGAGGT+TGG + chr4.3:67957561-67957580 MS.gene48665:CDS 45.0%
GCTGGGATGACCATGAATAA+TGG + chr4.3:67957693-67957712 MS.gene48665:CDS 45.0%
TATTCATGGTCATCCCAGCA+TGG - chr4.3:67957692-67957711 None:intergenic 45.0%
TGGCACTACCATTGTCATCT+AGG + chr4.3:67957637-67957656 MS.gene48665:CDS 45.0%
TGGTAGAAGGTTGGAAGAAG+AGG + chr4.3:67957581-67957600 MS.gene48665:CDS 45.0%
GAAATGGCAAGGATGGGTCA+TGG + chr4.3:67957666-67957685 MS.gene48665:CDS 50.0%
GAAGCCTGTGCCATAGTCTA+TGG + chr4.3:67957255-67957274 MS.gene48665:CDS 50.0%
GAGATATGGCCGTCATCACA+AGG + chr4.3:67957297-67957316 MS.gene48665:CDS 50.0%
GTGGAAGGGTCTACTGAAGA+AGG + chr4.3:67957203-67957222 MS.gene48665:CDS 50.0%
TGGTCCATAGACTATGGCAC+AGG - chr4.3:67957262-67957281 None:intergenic 50.0%
!! GAAGATGAGACGGTGCCATT+TGG + chr4.3:67957765-67957784 MS.gene48665:CDS 50.0%
!! GAAGGAGGTTGGTAGAAGGT+TGG + chr4.3:67957572-67957591 MS.gene48665:CDS 50.0%
!! TGTGATGACGGCCATATCTC+TGG - chr4.3:67957297-67957316 None:intergenic 50.0%
CTAGGATCGACCTCGCCAAA+TGG - chr4.3:67957783-67957802 None:intergenic 55.0%
GACGGCCATATCTCTGGTTG+AGG - chr4.3:67957291-67957310 None:intergenic 55.0%
AGGATGGGTCATGGCCATGC+TGG + chr4.3:67957675-67957694 MS.gene48665:CDS 60.0%
GGATGGGTCATGGCCATGCT+GGG + chr4.3:67957676-67957695 MS.gene48665:CDS 60.0%
!! TGAGACGGTGCCATTTGGCG+AGG + chr4.3:67957770-67957789 MS.gene48665:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 67957132 67957827 67957132 ID=MS.gene48665
chr4.3 mRNA 67957132 67957827 67957132 ID=MS.gene48665.t1;Parent=MS.gene48665
chr4.3 exon 67957132 67957827 67957132 ID=MS.gene48665.t1.exon1;Parent=MS.gene48665.t1
chr4.3 CDS 67957132 67957827 67957132 ID=cds.MS.gene48665.t1;Parent=MS.gene48665.t1
Gene Sequence

>MS.gene48665

ATGGCTAGGAAAAAGATGAAAATTGCTTTCATTGTAAATGATGCATCTAGGAAAGCAACATACAATAACAGGTGGAAGGGTCTACTGAAGAAGGTTTATGAACTAAGCACTCTGTGTGGAGTTGAAGCCTGTGCCATAGTCTATGGACCATACAAGCCTCAACCAGAGATATGGCCGTCATCACAAGGAGTCCAAATAGTGCTCTCAAAATTCATAACAATGACTGAAAGGGATAAGAGCAAGAAAATGCTGAATCAAGAGACATATATGAAAGAAAGGGTTTTAAAGGCCAAAGAGAAACTGAAGATACAAAGGCATGACAACAAGGAGAAAGAGATGGCAATGCTCATGTTTCAATGTCTTTCTGAAGGTAACTTTATGCAGAGTAATATGTCATTGGTTGATTCAAAACATCTTTGTTGGTTGATTGACCAGAAAATGAAGGAGGTTGGTAGAAGGTTGGAAGAAGAGGATAATAATGGTCAACATGAAATTCAACTCCAAATGGCACTACCATTGTCATCTAGGAATGAGGAAATGGCAAGGATGGGTCATGGCCATGCTGGGATGACCATGAATAATGGTGACATCATTGAAAATCAATTTTTGATGGGCTTGATGATGAATGGTTATGAAGATGAGACGGTGCCATTTGGCGAGGTCGATCCTAGATTTTTGCCCAATATACTGCCTTGA
Protein sequence

>MS.gene48665.t1

MARKKMKIAFIVNDASRKATYNNRWKGLLKKVYELSTLCGVEACAIVYGPYKPQPEIWPSSQGVQIVLSKFITMTERDKSKKMLNQETYMKERVLKAKEKLKIQRHDNKEKEMAMLMFQCLSEGNFMQSNMSLVDSKHLCWLIDQKMKEVGRRLEEEDNNGQHEIQLQMALPLSSRNEEMARMGHGHAGMTMNNGDIIENQFLMGLMMNGYEDETVPFGEVDPRFLPNILP