AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180001107.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001107.01.T01 MTR_1g030820 74.675 154 38 1 1 154 1 153 2.28e-84 244
MsG0180001107.01.T01 MTR_1g030810 72.078 154 42 1 1 154 1 153 1.85e-80 234
MsG0180001107.01.T01 MTR_1g030840 60.897 156 55 2 1 151 1 155 1.50e-60 184
MsG0180001107.01.T01 MTR_8g045570 42.857 154 84 3 1 153 1 151 3.17e-41 135
MsG0180001107.01.T01 MTR_8g045555 41.558 154 86 3 1 153 1 151 1.41e-40 134
MsG0180001107.01.T01 MTR_8g045300 44.516 155 82 3 1 154 1 152 5.06e-39 130
MsG0180001107.01.T01 MTR_8g045400 42.857 154 83 4 1 153 1 150 5.66e-39 129
MsG0180001107.01.T01 MTR_8g045490 42.208 154 85 3 1 153 1 151 3.13e-38 127
MsG0180001107.01.T01 MTR_8g045520 41.935 155 86 3 1 154 1 152 7.45e-38 127
MsG0180001107.01.T01 MTR_8g045695 41.558 154 85 4 1 153 1 150 9.09e-38 126
MsG0180001107.01.T01 MTR_8g045560 40.260 154 87 4 1 153 1 150 3.88e-36 122
MsG0180001107.01.T01 MTR_8g045640 39.610 154 88 4 1 153 1 150 3.27e-35 120
MsG0180001107.01.T01 MTR_8g045735 38.312 154 90 4 1 153 1 150 5.85e-35 119
MsG0180001107.01.T01 MTR_8g045665 37.662 154 91 4 1 153 1 150 1.03e-33 116
MsG0180001107.01.T01 MTR_8g012550 36.242 149 92 2 6 154 8 153 1.83e-30 108
MsG0180001107.01.T01 MTR_1g031640 36.486 148 85 4 7 153 7 146 1.31e-28 103
MsG0180001107.01.T01 MTR_5g035010 29.412 153 102 4 1 151 3 151 7.26e-14 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001107.01.T01 AT5G28010 40.260 154 89 2 2 154 14 165 1.84e-37 126
MsG0180001107.01.T01 AT5G28010 40.260 154 89 2 2 154 14 165 1.84e-37 126
MsG0180001107.01.T01 AT1G70890 37.662 154 93 2 2 154 6 157 2.45e-34 118
MsG0180001107.01.T01 AT1G70830 38.312 154 92 2 2 154 21 172 1.31e-33 116
MsG0180001107.01.T01 AT1G70840 37.662 154 93 2 2 154 19 170 1.88e-33 116
MsG0180001107.01.T01 AT1G70830 38.312 154 92 2 2 154 21 172 3.31e-33 116
MsG0180001107.01.T01 AT1G70830 38.312 154 92 2 2 154 21 172 1.21e-32 116
MsG0180001107.01.T01 AT1G70830 38.312 154 92 2 2 154 21 172 5.48e-32 116
MsG0180001107.01.T01 AT1G70830 37.662 154 93 2 2 154 183 334 9.93e-31 113
MsG0180001107.01.T01 AT1G70850 36.184 152 94 2 2 152 8 157 1.23e-31 113
MsG0180001107.01.T01 AT5G28000 36.364 154 95 2 2 154 12 163 1.52e-31 111
MsG0180001107.01.T01 AT1G70830 37.662 154 93 2 2 154 136 287 2.98e-31 114
MsG0180001107.01.T01 AT1G70830 38.043 92 54 2 64 154 36 125 8.76e-16 72.8
MsG0180001107.01.T01 AT1G70850 36.184 152 94 2 2 152 8 157 6.46e-31 113
MsG0180001107.01.T01 AT1G70850 37.762 143 86 2 13 154 175 315 2.06e-29 109
MsG0180001107.01.T01 AT1G70850 36.184 152 94 2 2 152 8 157 6.46e-31 113
MsG0180001107.01.T01 AT1G70850 37.762 143 86 2 13 154 175 315 2.06e-29 109
MsG0180001107.01.T01 AT1G70880 35.065 154 97 2 2 154 7 158 3.55e-29 105
MsG0180001107.01.T01 AT1G14930 33.987 153 98 2 1 153 1 150 4.11e-24 92.0
MsG0180001107.01.T01 AT1G23130 32.468 154 100 3 2 154 9 159 6.18e-24 91.7
MsG0180001107.01.T01 AT1G35260 31.081 148 96 4 7 152 6 149 1.98e-23 90.1
MsG0180001107.01.T01 AT1G70870 36.054 147 77 6 7 153 9 138 4.08e-23 89.0
MsG0180001107.01.T01 AT1G23120 31.081 148 95 4 7 154 7 147 1.30e-21 85.5
MsG0180001107.01.T01 AT1G23120 31.081 148 95 4 7 154 57 197 2.62e-21 85.9
MsG0180001107.01.T01 AT1G14960 29.412 153 105 2 1 153 1 150 1.36e-20 82.8
MsG0180001107.01.T01 AT1G14940 30.263 152 103 2 1 152 1 149 4.85e-20 81.6
MsG0180001107.01.T01 AT1G30990 29.605 152 103 2 1 152 1 148 5.83e-20 81.3
MsG0180001107.01.T01 AT4G14060 28.758 153 106 2 1 153 1 150 1.04e-18 77.8
MsG0180001107.01.T01 AT1G14950 28.758 153 106 2 1 153 1 150 1.81e-18 77.4
MsG0180001107.01.T01 AT2G01520 28.105 153 107 2 1 153 1 150 3.55e-18 76.6
MsG0180001107.01.T01 AT1G24020 33.333 156 98 4 1 154 1 152 2.49e-17 74.3
MsG0180001107.01.T01 AT1G24020 33.333 156 98 4 1 154 1 152 2.49e-17 74.3
MsG0180001107.01.T01 AT1G35310 29.371 143 96 4 13 154 12 150 5.76e-17 73.6
MsG0180001107.01.T01 AT3G26450 26.623 154 109 3 1 153 1 151 2.28e-16 72.0
MsG0180001107.01.T01 AT2G01530 28.758 153 106 2 1 153 1 150 4.00e-16 71.2
MsG0180001107.01.T01 AT4G23670 28.758 153 106 2 1 153 1 150 2.15e-15 69.3
MsG0180001107.01.T01 AT4G23680 27.451 153 108 2 1 153 1 150 2.03e-14 66.6
MsG0180001107.01.T01 AT3G26460 25.974 154 110 3 1 153 1 151 7.71e-14 65.1

Find 33 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTATTTCTGTAGAGATATT+TGG 0.208083 1:-16080226 None:intergenic
TCCATCTCCTGATTCATTCT+TGG 0.298701 1:+16081130 MsG0180001107.01.T01:CDS
TGAGAGTTACAAGAGTTTAA+AGG 0.317745 1:+16081019 MsG0180001107.01.T01:CDS
GACTATAGATGATGACAATA+AGG 0.378498 1:+16080962 MsG0180001107.01.T01:CDS
GCAAATTCCAAGAATGAATC+AGG 0.409285 1:-16081137 None:intergenic
AAACTAAAGGAGGATATTAC+AGG 0.410116 1:+16081107 MsG0180001107.01.T01:CDS
AAACACTGGGAATGTACAAT+AGG 0.416951 1:+16080298 MsG0180001107.01.T01:CDS
ATTACATATAGCGTCTTTGA+TGG 0.431153 1:+16080987 MsG0180001107.01.T01:CDS
TAGAGTGCATGAAGGTGATT+GGG 0.452844 1:+16080258 MsG0180001107.01.T01:CDS
GTAGAGTGCATGAAGGTGAT+TGG 0.455183 1:+16080257 MsG0180001107.01.T01:CDS
AGCATAAATATGTCTTTAAG+TGG 0.457892 1:+16080124 None:intergenic
TATGTCTTTAAGTGGGAAAG+TGG 0.466560 1:+16080132 None:intergenic
ATGGTGGTGGGAATGTGAAA+TGG 0.472646 1:+16081069 MsG0180001107.01.T01:CDS
ATTCTTGGAATTTGCTGCAA+AGG 0.478866 1:+16081145 MsG0180001107.01.T01:CDS
TTACATATAGCGTCTTTGAT+GGG 0.493542 1:+16080988 MsG0180001107.01.T01:CDS
AGCGTCTTTGATGGGGAAGC+GGG 0.497447 1:+16080996 MsG0180001107.01.T01:CDS
ATGTTGGTTCTGTTAAACAC+TGG 0.536822 1:+16080284 MsG0180001107.01.T01:CDS
TGTTGGTTCTGTTAAACACT+GGG 0.537110 1:+16080285 MsG0180001107.01.T01:CDS
TAGCGTCTTTGATGGGGAAG+CGG 0.547611 1:+16080995 MsG0180001107.01.T01:CDS
TATTGATGCTCATCTTATCA+AGG 0.554137 1:+16081178 MsG0180001107.01.T01:CDS
TCCAAGAATGAATCAGGAGA+TGG 0.563426 1:-16081131 None:intergenic
ATTGATAACGAACATGGTGG+TGG 0.580253 1:+16081056 MsG0180001107.01.T01:CDS
TACATATAGCGTCTTTGATG+GGG 0.593191 1:+16080989 MsG0180001107.01.T01:CDS
GCATAAATATGTCTTTAAGT+GGG 0.599699 1:+16080125 None:intergenic
GAAGGTGATTGGGAAAATGT+TGG 0.613283 1:+16080268 MsG0180001107.01.T01:CDS
TCTACAGAAATAGTGCATGA+AGG 0.618856 1:+16080235 MsG0180001107.01.T01:CDS
TGAGTATGAGAAACTAAAGG+AGG 0.619135 1:+16081097 MsG0180001107.01.T01:CDS
CAAGTGATTGATAACGAACA+TGG 0.619183 1:+16081050 MsG0180001107.01.T01:CDS
GTCTTTAAGTGGGAAAGTGG+AGG 0.619593 1:+16080135 MsG0180001107.01.T01:CDS
ATATCATAGAATTTAGCAGT+AGG 0.629215 1:-16080178 None:intergenic
TTGATAACGAACATGGTGGT+GGG 0.662118 1:+16081057 MsG0180001107.01.T01:CDS
CATGAAGGTAGAGTGCATGA+AGG 0.708400 1:+16080250 MsG0180001107.01.T01:CDS
GTGATTGATAACGAACATGG+TGG 0.823091 1:+16081053 MsG0180001107.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATGATTTTTACTTATATTT+TGG + Chr1:16080696-16080715 MsG0180001107.01.T01:intron 10.0%
!! TGAATTTCAATATATTTGAA+AGG + Chr1:16080620-16080639 MsG0180001107.01.T01:intron 15.0%
!!! AAATTTACATATGTTTTGAA+AGG - Chr1:16080491-16080510 None:intergenic 15.0%
!! TTTGAAAGGTAATTTAACTA+CGG - Chr1:16080653-16080634 None:intergenic 20.0%
!!! AAAAAGTATATTACTCACAT+AGG - Chr1:16080673-16080692 None:intergenic 20.0%
! AGATTGCTGAAAATTCATTT+AGG + Chr1:16080569-16080588 MsG0180001107.01.T01:intron 25.0%
! AGCAATCTTAATGTTTACTT+TGG - Chr1:16080557-16080576 None:intergenic 25.0%
! ATATCATAGAATTTAGCAGT+AGG - Chr1:16080181-16080200 None:intergenic 25.0%
! GATTGCTGAAAATTCATTTA+GGG + Chr1:16080570-16080589 MsG0180001107.01.T01:intron 25.0%
!!! ACTATTTCTGTAGAGATATT+TGG - Chr1:16080229-16080248 None:intergenic 25.0%
!!! TTTTGAGTATGAGAAACTAA+AGG + Chr1:16081094-16081113 MsG0180001107.01.T01:CDS 25.0%
AAACTAAAGGAGGATATTAC+AGG + Chr1:16081107-16081126 MsG0180001107.01.T01:CDS 30.0%
AGATTGCTCAGAATTCATTT+AGG + Chr1:16080426-16080445 MsG0180001107.01.T01:intron 30.0%
ATTACATATAGCGTCTTTGA+TGG + Chr1:16080987-16081006 MsG0180001107.01.T01:CDS 30.0%
GACTATAGATGATGACAATA+AGG + Chr1:16080962-16080981 MsG0180001107.01.T01:CDS 30.0%
GATTGCTCAGAATTCATTTA+GGG + Chr1:16080427-16080446 MsG0180001107.01.T01:intron 30.0%
TATTGATGCTCATCTTATCA+AGG + Chr1:16081178-16081197 MsG0180001107.01.T01:CDS 30.0%
TGAGAGTTACAAGAGTTTAA+AGG + Chr1:16081019-16081038 MsG0180001107.01.T01:CDS 30.0%
TTACATATAGCGTCTTTGAT+GGG + Chr1:16080988-16081007 MsG0180001107.01.T01:CDS 30.0%
! ATTCATTTAGGGCATTATTG+TGG + Chr1:16080438-16080457 MsG0180001107.01.T01:intron 30.0%
!!! TTTGTTTTTTTCCTTCTGCA+TGG - Chr1:16080923-16080942 None:intergenic 30.0%
AAACACTGGGAATGTACAAT+AGG + Chr1:16080298-16080317 MsG0180001107.01.T01:CDS 35.0%
GAAAGGTAATTTAACTACGG+TGG - Chr1:16080474-16080493 None:intergenic 35.0%
GCAAATTCCAAGAATGAATC+AGG - Chr1:16081140-16081159 None:intergenic 35.0%
TACATATAGCGTCTTTGATG+GGG + Chr1:16080989-16081008 MsG0180001107.01.T01:CDS 35.0%
TCTACAGAAATAGTGCATGA+AGG + Chr1:16080235-16080254 MsG0180001107.01.T01:CDS 35.0%
TGAGTATGAGAAACTAAAGG+AGG + Chr1:16081097-16081116 MsG0180001107.01.T01:CDS 35.0%
!! ATGTTGGTTCTGTTAAACAC+TGG + Chr1:16080284-16080303 MsG0180001107.01.T01:CDS 35.0%
!! ATTCTTGGAATTTGCTGCAA+AGG + Chr1:16081145-16081164 MsG0180001107.01.T01:CDS 35.0%
!! CAAGTGATTGATAACGAACA+TGG + Chr1:16081050-16081069 MsG0180001107.01.T01:CDS 35.0%
!! TGTTGGTTCTGTTAAACACT+GGG + Chr1:16080285-16080304 MsG0180001107.01.T01:CDS 35.0%
GAAGGTGATTGGGAAAATGT+TGG + Chr1:16080268-16080287 MsG0180001107.01.T01:CDS 40.0%
TAGAGTGCATGAAGGTGATT+GGG + Chr1:16080258-16080277 MsG0180001107.01.T01:CDS 40.0%
TCCAAGAATGAATCAGGAGA+TGG - Chr1:16081134-16081153 None:intergenic 40.0%
TCCATCTCCTGATTCATTCT+TGG + Chr1:16081130-16081149 MsG0180001107.01.T01:CDS 40.0%
!! ATTGATAACGAACATGGTGG+TGG + Chr1:16081056-16081075 MsG0180001107.01.T01:CDS 40.0%
!! GTGATTGATAACGAACATGG+TGG + Chr1:16081053-16081072 MsG0180001107.01.T01:CDS 40.0%
!! TTGATAACGAACATGGTGGT+GGG + Chr1:16081057-16081076 MsG0180001107.01.T01:CDS 40.0%
CATGAAGGTAGAGTGCATGA+AGG + Chr1:16080250-16080269 MsG0180001107.01.T01:CDS 45.0%
GTAGAGTGCATGAAGGTGAT+TGG + Chr1:16080257-16080276 MsG0180001107.01.T01:CDS 45.0%
GTCTTTAAGTGGGAAAGTGG+AGG + Chr1:16080135-16080154 MsG0180001107.01.T01:CDS 45.0%
!! ATGGTGGTGGGAATGTGAAA+TGG + Chr1:16081069-16081088 MsG0180001107.01.T01:CDS 45.0%
TACGTGCGAATCCATGCAGA+AGG + Chr1:16080909-16080928 MsG0180001107.01.T01:intron 50.0%
TAGCGTCTTTGATGGGGAAG+CGG + Chr1:16080995-16081014 MsG0180001107.01.T01:CDS 50.0%
AGCGTCTTTGATGGGGAAGC+GGG + Chr1:16080996-16081015 MsG0180001107.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 16080133 16081205 16080133 ID=MsG0180001107.01;Name=MsG0180001107.01
Chr1 mRNA 16080133 16081205 16080133 ID=MsG0180001107.01.T01;Parent=MsG0180001107.01;Name=MsG0180001107.01.T01;_AED=0.41;_eAED=0.41;_QI=0|0|0|1|1|1|2|0|154
Chr1 exon 16080133 16080319 16080133 ID=MsG0180001107.01.T01:exon:31194;Parent=MsG0180001107.01.T01
Chr1 exon 16080928 16081205 16080928 ID=MsG0180001107.01.T01:exon:31195;Parent=MsG0180001107.01.T01
Chr1 CDS 16080133 16080319 16080133 ID=MsG0180001107.01.T01:cds;Parent=MsG0180001107.01.T01
Chr1 CDS 16080928 16081205 16080928 ID=MsG0180001107.01.T01:cds;Parent=MsG0180001107.01.T01
Gene Sequence

>MsG0180001107.01.T01

ATGTCTTTAAGTGGGAAAGTGGAGGCTGAAATAGAGATTCAAGCACCTACTGCTAAATTCTATGATATGTTTAGAAAGCAAATTCATCATATTCCAAATATCTCTACAGAAATAGTGCATGAAGGTAGAGTGCATGAAGGTGATTGGGAAAATGTTGGTTCTGTTAAACACTGGGAATGTACAATAGAAGGAAAAAAACAAAGTGCTAAAGAAAAAGTTGAGACTATAGATGATGACAATAAGGTAATTACATATAGCGTCTTTGATGGGGAAGCGGGTGAGAGTTACAAGAGTTTAAAGGTAACATTACAAGTGATTGATAACGAACATGGTGGTGGGAATGTGAAATGGAGTTTTGAGTATGAGAAACTAAAGGAGGATATTACAGGTCCATCTCCTGATTCATTCTTGGAATTTGCTGCAAAGGTCACAAAAGATATTGATGCTCATCTTATCAAGGAATAA

Protein sequence

>MsG0180001107.01.T01

MSLSGKVEAEIEIQAPTAKFYDMFRKQIHHIPNISTEIVHEGRVHEGDWENVGSVKHWECTIEGKKQSAKEKVETIDDDNKVITYSVFDGEAGESYKSLKVTLQVIDNEHGGGNVKWSFEYEKLKEDITGPSPDSFLEFAAKVTKDIDAHLIKE*