AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280009367.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280009367.01.T01 MTR_5g006460 88.136 118 12 1 99 214 76 193 2.99e-67 205
MsG0280009367.01.T01 MTR_5g006430 95.000 100 5 0 1 100 1 100 4.78e-65 196
MsG0280009367.01.T01 MTR_5g006510 83.621 116 19 0 99 214 76 191 2.30e-63 195
MsG0280009367.01.T01 MTR_5g006450 74.783 115 29 0 100 214 76 190 8.20e-54 171
MsG0280009367.01.T01 MTR_5g006470 73.913 115 28 1 100 214 76 188 1.91e-52 167
MsG0280009367.01.T01 MTR_5g006520 70.435 115 34 0 100 214 1794 1908 6.93e-48 168
MsG0280009367.01.T01 MTR_1g103110 63.248 117 41 1 98 214 76 190 2.73e-44 146
MsG0280009367.01.T01 MTR_1g103550 78.824 85 17 1 1 84 1 85 2.96e-42 139
MsG0280009367.01.T01 MTR_1g103150 59.829 117 45 1 98 214 76 190 3.94e-41 138
MsG0280009367.01.T01 MTR_7g114410 48.276 116 55 2 97 211 60 171 1.74e-29 108
MsG0280009367.01.T01 MTR_8g021190 49.057 106 46 2 2 99 30 135 5.73e-28 103
MsG0280009367.01.T01 MTR_7g024780 44.348 115 61 1 97 211 59 170 2.90e-27 102
MsG0280009367.01.T01 MTR_7g024760 44.348 115 60 2 97 211 59 169 1.21e-26 100
MsG0280009367.01.T01 MTR_3g463610 47.788 113 59 0 99 211 61 173 9.18e-26 99.8
MsG0280009367.01.T01 MTR_7g024765 44.348 115 60 2 97 211 59 169 4.20e-25 97.1
MsG0280009367.01.T01 MTR_7g114410 47.525 101 48 2 97 196 60 156 7.44e-24 93.2
MsG0280009367.01.T01 MTR_3g105340 45.570 79 43 0 1 79 10 88 4.42e-22 87.8
MsG0280009367.01.T01 MTR_4g125010 47.222 72 38 0 1 72 23 94 2.89e-21 86.7
MsG0280009367.01.T01 MTR_3g109860 37.190 121 62 2 2 118 36 146 1.08e-19 82.0
MsG0280009367.01.T01 MTR_4g125030 47.297 74 39 0 1 74 21 94 1.95e-19 80.9
MsG0280009367.01.T01 MTR_8g013990 44.944 89 40 3 2 84 62 147 1.09e-18 80.5
MsG0280009367.01.T01 MTR_2g101140 43.678 87 44 2 2 84 62 147 8.62e-18 78.2
MsG0280009367.01.T01 MTR_1g014930 37.143 105 58 3 5 101 19 123 4.84e-15 69.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280009367.01.T01 AT3G22540 71.134 97 26 2 1 96 1 96 4.25e-41 135
MsG0280009367.01.T01 AT4G14819 68.817 93 27 1 1 93 1 91 3.12e-38 128
MsG0280009367.01.T01 AT2G32030 57.522 113 41 3 100 211 79 185 3.49e-34 120
MsG0280009367.01.T01 AT2G32020 52.893 121 50 3 92 211 66 180 8.27e-33 117
MsG0280009367.01.T01 AT1G72510 48.352 91 42 1 2 87 33 123 3.76e-23 91.7
MsG0280009367.01.T01 AT1G72510 48.352 91 42 1 2 87 33 123 3.76e-23 91.7
MsG0280009367.01.T01 AT3G22560 40.625 128 63 3 85 211 57 172 1.11e-22 90.9
MsG0280009367.01.T01 AT1G79770 42.105 114 61 2 1 110 50 162 2.33e-20 84.3
MsG0280009367.01.T01 AT5G20670 39.423 104 52 2 3 95 23 126 2.41e-20 84.0
MsG0280009367.01.T01 AT5G25840 39.048 105 55 2 2 97 42 146 8.92e-19 80.5
MsG0280009367.01.T01 AT1G54095 45.570 79 40 2 2 77 15 93 3.83e-15 70.1
MsG0280009367.01.T01 AT2G09970 38.043 92 51 2 2 87 33 124 6.16e-15 70.1
MsG0280009367.01.T01 AT2G25780 38.202 89 48 3 7 89 40 127 1.16e-12 63.5

Find 38 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAAGTATGTATTCTTTAA+AGG 0.161729 2:+50997831 MsG0280009367.01.T01:CDS
AGAATCAAATGTGCAGAAAT+TGG 0.218349 2:+50997627 MsG0280009367.01.T01:CDS
TCCTAAGAACTCCCTCCTTT+TGG 0.260104 2:-50997812 None:intergenic
AGTCAAAATTTGATGGAAAA+TGG 0.285752 2:+50997201 MsG0280009367.01.T01:CDS
ATGTTCTAGGGTCTAAATAC+TGG 0.295533 2:+50997652 MsG0280009367.01.T01:CDS
GCAGAAATTGGGTATGTTCT+AGG 0.308658 2:+50997639 MsG0280009367.01.T01:CDS
TGCCATAATGATCATGCTAT+TGG 0.333891 2:+50997564 MsG0280009367.01.T01:CDS
ACCCAATAGCATGATCATTA+TGG 0.341789 2:-50997566 None:intergenic
GTTAGAGATGAAGCTATTAG+AGG 0.393393 2:+50997248 MsG0280009367.01.T01:CDS
TCCAAAAGGAGGGAGTTCTT+AGG 0.394554 2:+50997811 MsG0280009367.01.T01:CDS
GGGTCTAAATACTGGGGTAA+AGG 0.408523 2:+50997660 MsG0280009367.01.T01:CDS
CACGTTTGCTGTGAAACAAA+TGG 0.422199 2:+50997689 MsG0280009367.01.T01:CDS
GGTCTAAATACTGGGGTAAA+GGG 0.432496 2:+50997661 MsG0280009367.01.T01:CDS
CTTGTTGATGTGGATAATGT+TGG 0.439455 2:+50997759 MsG0280009367.01.T01:CDS
CAAAGAGTGCTTGAGAAAGT+TGG 0.446874 2:+50997786 MsG0280009367.01.T01:CDS
GAATCAAATGTGCAGAAATT+GGG 0.456981 2:+50997628 MsG0280009367.01.T01:CDS
GAAGTGAAGTCAAAATTTGA+TGG 0.458617 2:+50997194 MsG0280009367.01.T01:CDS
TGCTGTGAAACAAATGGTTA+AGG 0.473285 2:+50997695 MsG0280009367.01.T01:CDS
GCCATAATGATCATGCTATT+GGG 0.478546 2:+50997565 MsG0280009367.01.T01:CDS
TTTGATGGAAAATGGTTATG+TGG 0.481592 2:+50997209 MsG0280009367.01.T01:CDS
TGAGAAAGTTGGTTTCCAAA+AGG 0.498958 2:+50997797 MsG0280009367.01.T01:CDS
CAGAAATTGGGTATGTTCTA+GGG 0.510753 2:+50997640 MsG0280009367.01.T01:CDS
TGTTCTAGGGTCTAAATACT+GGG 0.513003 2:+50997653 MsG0280009367.01.T01:CDS
AACTTTGTTGACCTTCTCCT+AGG 0.514865 2:-50997377 None:intergenic
TTGATGGAAAATGGTTATGT+GGG 0.531455 2:+50997210 MsG0280009367.01.T01:CDS
TTGTTGATGTGGATAATGTT+GGG 0.535303 2:+50997760 MsG0280009367.01.T01:CDS
GAAAGTTGGTTTCCAAAAGG+AGG 0.543592 2:+50997800 MsG0280009367.01.T01:CDS
TGAGTGTTGCGGCTTAAAAG+AGG 0.545307 2:+50997148 MsG0280009367.01.T01:CDS
GCTTGAAGCTCTTGTTGATG+TGG 0.580383 2:+50997749 MsG0280009367.01.T01:CDS
CCATCAGCAACACAAACTGC+AGG 0.594058 2:-50997341 None:intergenic
AAAGTTGGTTTCCAAAAGGA+GGG 0.596054 2:+50997801 MsG0280009367.01.T01:CDS
ATGGTATGAGACAGATACCT+AGG 0.596540 2:+50997360 MsG0280009367.01.T01:CDS
TTAGAGATGAAGCTATTAGA+GGG 0.599426 2:+50997249 MsG0280009367.01.T01:CDS
CCTGCAGTTTGTGTTGCTGA+TGG 0.605550 2:+50997341 MsG0280009367.01.T01:CDS
TGAGACAGATACCTAGGAGA+AGG 0.609498 2:+50997366 MsG0280009367.01.T01:CDS
TCAGCTAAGTGTGAGTGTTG+CGG 0.613560 2:+50997137 MsG0280009367.01.T01:CDS
CATTTGTTTCACAGCAAACG+TGG 0.659491 2:-50997688 None:intergenic
GTTCTAGGGTCTAAATACTG+GGG 0.712321 2:+50997654 MsG0280009367.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTGCTTACTATTTAAAAA+AGG - Chr2:50997544-50997563 None:intergenic 15.0%
!!! ATTCATTGTATTTTCATACT+TGG + Chr2:50997722-50997741 MsG0280009367.01.T01:CDS 20.0%
! AGTCAAAATTTGATGGAAAA+TGG + Chr2:50997201-50997220 MsG0280009367.01.T01:CDS 25.0%
! TATTTCAACCATACCAAAAA+CGG - Chr2:50997509-50997528 None:intergenic 25.0%
!! AGGAAGTATGTATTCTTTAA+AGG + Chr2:50997831-50997850 MsG0280009367.01.T01:CDS 25.0%
!! TTGTATTTTCATACTTGGAA+AGG + Chr2:50997727-50997746 MsG0280009367.01.T01:CDS 25.0%
AGAATCAAATGTGCAGAAAT+TGG + Chr2:50997627-50997646 MsG0280009367.01.T01:CDS 30.0%
GAAGTGAAGTCAAAATTTGA+TGG + Chr2:50997194-50997213 MsG0280009367.01.T01:CDS 30.0%
GAATAAAAAACAGAGGAGAT+TGG + Chr2:50997455-50997474 MsG0280009367.01.T01:intron 30.0%
GAATCAAATGTGCAGAAATT+GGG + Chr2:50997628-50997647 MsG0280009367.01.T01:CDS 30.0%
TTAGAGATGAAGCTATTAGA+GGG + Chr2:50997249-50997268 MsG0280009367.01.T01:CDS 30.0%
TTGATGGAAAATGGTTATGT+GGG + Chr2:50997210-50997229 MsG0280009367.01.T01:CDS 30.0%
TTGTTGATGTGGATAATGTT+GGG + Chr2:50997760-50997779 MsG0280009367.01.T01:CDS 30.0%
TTTGATGGAAAATGGTTATG+TGG + Chr2:50997209-50997228 MsG0280009367.01.T01:CDS 30.0%
! TTTTTATTCACCACCTACTT+GGG - Chr2:50997444-50997463 None:intergenic 30.0%
!!! TTTTTTATTCACCACCTACT+TGG - Chr2:50997445-50997464 None:intergenic 30.0%
AAAAACAGAGGAGATTGGAA+AGG + Chr2:50997460-50997479 MsG0280009367.01.T01:intron 35.0%
ACCCAATAGCATGATCATTA+TGG - Chr2:50997569-50997588 None:intergenic 35.0%
AGGGAAAAAGACATTTGCAA+TGG + Chr2:50997268-50997287 MsG0280009367.01.T01:CDS 35.0%
AGGTGGTGAATAAAAAACAG+AGG + Chr2:50997448-50997467 MsG0280009367.01.T01:intron 35.0%
CAGAAATTGGGTATGTTCTA+GGG + Chr2:50997640-50997659 MsG0280009367.01.T01:CDS 35.0%
CTTGTTGATGTGGATAATGT+TGG + Chr2:50997759-50997778 MsG0280009367.01.T01:CDS 35.0%
GCCATAATGATCATGCTATT+GGG + Chr2:50997565-50997584 MsG0280009367.01.T01:CDS 35.0%
GTTAGAGATGAAGCTATTAG+AGG + Chr2:50997248-50997267 MsG0280009367.01.T01:CDS 35.0%
TGCCATAATGATCATGCTAT+TGG + Chr2:50997564-50997583 MsG0280009367.01.T01:CDS 35.0%
TGCTGTGAAACAAATGGTTA+AGG + Chr2:50997695-50997714 MsG0280009367.01.T01:CDS 35.0%
! AAAGTTGGTTTCCAAAAGGA+GGG + Chr2:50997801-50997820 MsG0280009367.01.T01:CDS 35.0%
! TGAGAAAGTTGGTTTCCAAA+AGG + Chr2:50997797-50997816 MsG0280009367.01.T01:CDS 35.0%
!! ATGTTCTAGGGTCTAAATAC+TGG + Chr2:50997652-50997671 MsG0280009367.01.T01:CDS 35.0%
!! TGTTCTAGGGTCTAAATACT+GGG + Chr2:50997653-50997672 MsG0280009367.01.T01:CDS 35.0%
AACTTTGTTGACCTTCTCCT+AGG - Chr2:50997380-50997399 None:intergenic 40.0%
ATGGTATGAGACAGATACCT+AGG + Chr2:50997360-50997379 MsG0280009367.01.T01:CDS 40.0%
CATCAAACAAACACAGTACG+AGG + Chr2:50997405-50997424 MsG0280009367.01.T01:intron 40.0%
CATTTGTTTCACAGCAAACG+TGG - Chr2:50997691-50997710 None:intergenic 40.0%
GAGATTGGAAAGGTTGGAAT+AGG + Chr2:50997470-50997489 MsG0280009367.01.T01:intron 40.0%
GCAGAAATTGGGTATGTTCT+AGG + Chr2:50997639-50997658 MsG0280009367.01.T01:CDS 40.0%
GGTCTAAATACTGGGGTAAA+GGG + Chr2:50997661-50997680 MsG0280009367.01.T01:CDS 40.0%
TCAACTTCAACTTCCCAAGT+AGG + Chr2:50997428-50997447 MsG0280009367.01.T01:intron 40.0%
! GAAAGTTGGTTTCCAAAAGG+AGG + Chr2:50997800-50997819 MsG0280009367.01.T01:CDS 40.0%
!! CAAAGAGTGCTTGAGAAAGT+TGG + Chr2:50997786-50997805 MsG0280009367.01.T01:CDS 40.0%
!! CACGTTTGCTGTGAAACAAA+TGG + Chr2:50997689-50997708 MsG0280009367.01.T01:CDS 40.0%
!! GTTCTAGGGTCTAAATACTG+GGG + Chr2:50997654-50997673 MsG0280009367.01.T01:CDS 40.0%
ACAGAGGAGATTGGAAAGGT+TGG + Chr2:50997464-50997483 MsG0280009367.01.T01:intron 45.0%
ACTTCAACTTCCCAAGTAGG+TGG + Chr2:50997431-50997450 MsG0280009367.01.T01:intron 45.0%
CCATACCAAAAACGGAGTGA+TGG - Chr2:50997501-50997520 None:intergenic 45.0%
GCTTGAAGCTCTTGTTGATG+TGG + Chr2:50997749-50997768 MsG0280009367.01.T01:CDS 45.0%
GGGTCTAAATACTGGGGTAA+AGG + Chr2:50997660-50997679 MsG0280009367.01.T01:CDS 45.0%
TCCAAAAGGAGGGAGTTCTT+AGG + Chr2:50997811-50997830 MsG0280009367.01.T01:CDS 45.0%
TGAGACAGATACCTAGGAGA+AGG + Chr2:50997366-50997385 MsG0280009367.01.T01:CDS 45.0%
! TCAGCTAAGTGTGAGTGTTG+CGG + Chr2:50997137-50997156 MsG0280009367.01.T01:CDS 45.0%
! TCCTAAGAACTCCCTCCTTT+TGG - Chr2:50997815-50997834 None:intergenic 45.0%
! TGAGTGTTGCGGCTTAAAAG+AGG + Chr2:50997148-50997167 MsG0280009367.01.T01:CDS 45.0%
!!! CCATCACTCCGTTTTTGGTA+TGG + Chr2:50997498-50997517 MsG0280009367.01.T01:intron 45.0%
CCATCAGCAACACAAACTGC+AGG - Chr2:50997344-50997363 None:intergenic 50.0%
! ACACGCCATCACTCCGTTTT+TGG + Chr2:50997493-50997512 MsG0280009367.01.T01:intron 50.0%
! CCTGCAGTTTGTGTTGCTGA+TGG + Chr2:50997341-50997360 MsG0280009367.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr2 gene 50997125 50997908 50997125 ID=MsG0280009367.01;Name=MsG0280009367.01
Chr2 mRNA 50997125 50997908 50997125 ID=MsG0280009367.01.T01;Parent=MsG0280009367.01;Name=MsG0280009367.01.T01;_AED=0.49;_eAED=0.50;_QI=0|0|0|1|1|1|2|0|214
Chr2 exon 50997125 50997419 50997125 ID=MsG0280009367.01.T01:exon:24021;Parent=MsG0280009367.01.T01
Chr2 exon 50997559 50997908 50997559 ID=MsG0280009367.01.T01:exon:24022;Parent=MsG0280009367.01.T01
Chr2 CDS 50997125 50997419 50997125 ID=MsG0280009367.01.T01:cds;Parent=MsG0280009367.01.T01
Chr2 CDS 50997559 50997908 50997559 ID=MsG0280009367.01.T01:cds;Parent=MsG0280009367.01.T01
Gene Sequence

>MsG0280009367.01.T01

ATGGAAATCGAATCAGCTAAGTGTGAGTGTTGCGGCTTAAAAGAGGATTGCACTCAAGACTACATCAGTGAAGTGAAGTCAAAATTTGATGGAAAATGGTTATGTGGGTTGTGTTCAGAAGCTGTTAGAGATGAAGCTATTAGAGGGAAAAAGACATTTGCAATGGAAGAAGCAATAAAAGCTCACATGTTGTTCTGTTGTAAGATTAAATCAAATCCTGCAGTTTGTGTTGCTGATGGTATGAGACAGATACCTAGGAGAAGGTCAACAAAGTTGTCTTCATCAAACAAACACACAATATGCCATAATGATCATGCTATTGGGTGTATTAAGTTGTTCTCAAGTTCACGTCATGATCTAAGCAGAATCAAATGTGCAGAAATTGGGTATGTTCTAGGGTCTAAATACTGGGGTAAAGGGATTACCACGTTTGCTGTGAAACAAATGGTTAAGGTTGCATTCATTGTATTTTCATACTTGGAAAGGCTTGAAGCTCTTGTTGATGTGGATAATGTTGGGTCGCAAAGAGTGCTTGAGAAAGTTGGTTTCCAAAAGGAGGGAGTTCTTAGGAAGTATGTATTCTTTAAAGGAAAAAGTAGAGATATGATCATGTTCAGTCTTCTTTCTACTGATCTTCAACTATGA
Protein sequence

>MsG0280009367.01.T01

MEIESAKCECCGLKEDCTQDYISEVKSKFDGKWLCGLCSEAVRDEAIRGKKTFAMEEAIKAHMLFCCKIKSNPAVCVADGMRQIPRRRSTKLSSSNKHTICHNDHAIGCIKLFSSSRHDLSRIKCAEIGYVLGSKYWGKGITTFAVKQMVKVAFIVFSYLERLEALVDVDNVGSQRVLEKVGFQKEGVLRKYVFFKGKSRDMIMFSLLSTDLQL*