AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180002532.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180002532.01.T01 MTR_1g049100 86.869 198 10 2 1 183 1 197 5.95e-110 312
MsG0180002532.01.T01 MTR_5g036480 64.557 237 30 4 1 183 1 237 2.03e-89 261
MsG0180002532.01.T01 MTR_4g106590 60.345 174 64 3 3 175 21 190 8.79e-61 188
MsG0180002532.01.T01 MTR_3g078613 57.714 175 59 3 7 169 22 193 1.38e-60 187
MsG0180002532.01.T01 MTR_3g078613 57.386 176 59 4 7 169 22 194 8.57e-59 182
MsG0180002532.01.T01 MTR_7g490310 62.319 138 46 1 7 138 8 145 2.32e-55 175
MsG0180002532.01.T01 MTR_8g038620 59.155 142 53 2 7 143 8 149 5.61e-51 162
MsG0180002532.01.T01 MTR_3g093860 58.696 138 50 3 4 138 14 147 1.11e-49 158
MsG0180002532.01.T01 MTR_3g015490 52.903 155 61 3 7 152 3 154 6.16e-46 149
MsG0180002532.01.T01 MTR_3g088630 50.676 148 57 3 6 138 20 166 5.58e-43 143
MsG0180002532.01.T01 MTR_6g007460 41.622 185 52 4 7 138 10 191 1.46e-35 124
MsG0180002532.01.T01 MTR_4g061360 36.220 127 69 2 8 134 89 203 1.71e-15 73.9
MsG0180002532.01.T01 MTR_3g092780 29.932 147 88 2 8 151 56 190 2.29e-15 73.6
MsG0180002532.01.T01 MTR_3g092780 29.932 147 88 2 8 151 56 190 2.32e-15 73.6
MsG0180002532.01.T01 MTR_4g051330 52.239 67 29 1 89 152 77 143 3.70e-15 69.7
MsG0180002532.01.T01 MTR_3g092780 29.730 148 88 2 8 151 56 191 4.66e-15 72.8
MsG0180002532.01.T01 MTR_3g092780 29.730 148 88 2 8 151 56 191 4.77e-15 72.8
MsG0180002532.01.T01 MTR_7g118260 29.375 160 101 2 8 167 14 161 6.84e-15 72.0
MsG0180002532.01.T01 MTR_8g024260 30.882 136 82 1 8 143 36 159 6.05e-14 69.3
MsG0180002532.01.T01 MTR_7g118260 32.283 127 74 2 8 134 14 128 9.53e-13 65.9
MsG0180002532.01.T01 MTR_7g117705 29.341 167 95 4 10 176 11 154 4.18e-12 63.9
MsG0180002532.01.T01 MTR_1g067110 29.134 127 78 1 8 134 85 199 2.22e-11 62.0
MsG0180002532.01.T01 MTR_1g067110 29.134 127 78 1 8 134 85 199 2.34e-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
MsG0180002532.01.T01 AT1G59940 62.366 186 57 5 4 183 29 207 1.18e-70 214
MsG0180002532.01.T01 AT1G10470 70.199 151 40 3 6 155 18 164 3.13e-69 211
MsG0180002532.01.T01 AT1G59940 62.366 186 57 5 4 183 121 299 3.30e-69 213
MsG0180002532.01.T01 AT1G10470 70.199 151 40 3 6 155 32 178 7.47e-69 210
MsG0180002532.01.T01 AT3G48100 62.346 162 59 1 8 169 25 184 5.23e-64 195
MsG0180002532.01.T01 AT5G62920 72.656 128 32 1 8 135 25 149 3.70e-61 188
MsG0180002532.01.T01 AT1G74890 71.318 129 34 1 7 135 17 142 3.53e-59 184
MsG0180002532.01.T01 AT1G19050 58.491 159 59 2 1 155 17 172 2.45e-58 182
MsG0180002532.01.T01 AT2G40670 59.259 135 55 0 4 138 25 159 1.72e-54 171
MsG0180002532.01.T01 AT3G57040 58.993 139 50 2 7 138 8 146 9.75e-54 171
MsG0180002532.01.T01 AT3G57040 58.993 139 50 2 7 138 8 146 9.75e-54 171
MsG0180002532.01.T01 AT3G56380 61.194 134 48 2 6 138 18 148 2.56e-53 167
MsG0180002532.01.T01 AT2G41310 59.441 143 52 2 1 138 3 144 2.81e-53 169
MsG0180002532.01.T01 AT2G40670 58.824 136 55 1 4 138 25 160 1.02e-52 166
MsG0180002532.01.T01 AT3G56380 60.741 135 48 3 6 138 18 149 1.51e-51 162
MsG0180002532.01.T01 AT1G10470 56.044 91 30 6 70 155 17 102 1.68e-23 92.0
MsG0180002532.01.T01 AT2G46790 31.343 134 80 2 8 141 37 158 4.33e-15 72.8
MsG0180002532.01.T01 AT2G46790 31.343 134 80 2 8 141 37 158 5.36e-15 72.4
MsG0180002532.01.T01 AT5G60100 34.848 132 74 2 10 141 66 185 1.90e-14 70.9
MsG0180002532.01.T01 AT5G60100 34.848 132 74 2 10 141 66 185 1.90e-14 70.9
MsG0180002532.01.T01 AT5G60100 34.848 132 74 2 10 141 66 185 1.90e-14 70.9
MsG0180002532.01.T01 AT5G60100 34.848 132 74 2 10 141 66 185 3.26e-14 70.1
MsG0180002532.01.T01 AT5G60100 34.848 132 74 2 10 141 66 185 4.93e-14 69.7
MsG0180002532.01.T01 AT5G60100 34.848 132 74 2 10 141 66 185 4.93e-14 69.7
MsG0180002532.01.T01 AT5G60100 34.848 132 74 2 10 141 66 185 4.93e-14 69.7
MsG0180002532.01.T01 AT5G24470 28.834 163 94 4 8 162 52 200 7.49e-14 69.3
MsG0180002532.01.T01 AT2G07440 60.000 50 20 0 89 138 9 58 1.11e-13 65.1
MsG0180002532.01.T01 AT5G02810 28.358 134 84 1 8 141 78 199 2.65e-12 64.7

Find 35 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGTGATTACATGCTTCTTC+TGG 0.290924 1:-39927103 None:intergenic
ATTGAAAATATTCAGATGTT+TGG 0.307010 1:+39926967 MsG0180002532.01.T01:intron
AACTCATAACCAGTCATTTC+TGG 0.328147 1:-39926171 None:intergenic
TTTGTTGCCTTAGCCTTTGA+AGG 0.366124 1:+39926119 MsG0180002532.01.T01:intron
CTCAAAATTTCTGCTTGTAA+AGG 0.386939 1:+39925713 MsG0180002532.01.T01:CDS
TTCTGAAGAGGTTCATGTAT+TGG 0.402386 1:+39925646 MsG0180002532.01.T01:CDS
TACTGGAATTTCCTTAAAAG+TGG 0.438337 1:-39926328 None:intergenic
TTAGTTACTGCTGTGGATAG+TGG 0.438893 1:+39925940 MsG0180002532.01.T01:intron
TTCACATCACATAATTTCAC+TGG 0.453732 1:-39927019 None:intergenic
ATAACAGTACCTGTCTATGC+GGG 0.487586 1:-39926379 None:intergenic
TCAGAAGACATAATCACTAC+TGG 0.489512 1:-39926345 None:intergenic
ATATTCTGCCCCGCATAGAC+AGG 0.510615 1:+39926370 MsG0180002532.01.T01:CDS
ATATTCAGATGTTTGGAAGA+AGG 0.511460 1:+39926974 MsG0180002532.01.T01:intron
TATTGCATGCCAGAAATGAC+TGG 0.520879 1:+39926162 MsG0180002532.01.T01:CDS
TTGATCGGAAAGTTATTGAA+AGG 0.524082 1:+39925687 MsG0180002532.01.T01:CDS
TGACAACCCAAATAGTCATT+CGG 0.532453 1:-39927191 None:intergenic
ATAACAAGATCCACCTTCAA+AGG 0.539532 1:-39926132 None:intergenic
GTTGCCTTAGCCTTTGAAGG+TGG 0.539999 1:+39926122 MsG0180002532.01.T01:intron
TGCTTGATTCTCCAATCAGA+CGG 0.554606 1:+39927152 MsG0180002532.01.T01:CDS
TACATGACAACAAGGGAGGT+TGG 0.562595 1:+39927055 MsG0180002532.01.T01:CDS
AGCACACTGGATGCAGACAA+TGG 0.577593 1:-39927133 None:intergenic
ACAACAAGGGAGGTTGGAGT+AGG 0.598300 1:+39927061 MsG0180002532.01.T01:CDS
ATGTTTGGAAGAAGGTGCAA+AGG 0.598645 1:+39926982 MsG0180002532.01.T01:CDS
AGAGAGAAGTCTGAATCTGA+TGG 0.604808 1:+39926000 MsG0180002532.01.T01:CDS
GATGGAGACAAATTCTGAAG+AGG 0.610289 1:+39925634 None:intergenic
TTGATGATAGTCTCATTGAT+CGG 0.612021 1:+39925672 MsG0180002532.01.T01:CDS
GTGAACTTTAGTTACTGCTG+TGG 0.629072 1:+39925933 MsG0180002532.01.T01:intron
TGAAGGGTTACATGACAACA+AGG 0.633631 1:+39927047 MsG0180002532.01.T01:CDS
ATGTGATGTGAAACGACTGA+AGG 0.650404 1:+39927030 MsG0180002532.01.T01:CDS
GATTGGAGAATCAAGCACAC+TGG 0.650465 1:-39927146 None:intergenic
TATAACAGTACCTGTCTATG+CGG 0.670864 1:-39926380 None:intergenic
TGTGATGTGAAACGACTGAA+GGG 0.672931 1:+39927031 MsG0180002532.01.T01:CDS
TAACAGTACCTGTCTATGCG+GGG 0.697429 1:-39926378 None:intergenic
GGGTTACATGACAACAAGGG+AGG 0.715675 1:+39927051 MsG0180002532.01.T01:CDS
GAAGGGTTACATGACAACAA+GGG 0.758159 1:+39927048 MsG0180002532.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTAAGGGATTATTATTATT+AGG + Chr1:39926418-39926437 MsG0180002532.01.T01:intron 15.0%
!!! AACAATTTTTGAAAAATAGT+TGG - Chr1:39926887-39926906 None:intergenic 15.0%
!!! TATAGTAATGATTTTTTCAA+TGG - Chr1:39926235-39926254 None:intergenic 15.0%
!! ATTGAAAATATTCAGATGTT+TGG + Chr1:39926967-39926986 MsG0180002532.01.T01:intron 20.0%
!!! ACGAAATAGATGTTTTTAAA+GGG + Chr1:39926546-39926565 MsG0180002532.01.T01:intron 20.0%
!!! ATTTAAGTGTCTTTTTTCTT+TGG - Chr1:39926703-39926722 None:intergenic 20.0%
!!! TACGAAATAGATGTTTTTAA+AGG + Chr1:39926545-39926564 MsG0180002532.01.T01:intron 20.0%
!!! TCATTAAAAAGTATAACCAT+TGG - Chr1:39926614-39926633 None:intergenic 20.0%
! TGAGTTGCTCAAAAAAATTA+AGG + Chr1:39926188-39926207 MsG0180002532.01.T01:CDS 25.0%
! TTTCAATTGTAACAAACCAA+TGG + Chr1:39926595-39926614 MsG0180002532.01.T01:intron 25.0%
!! TTATTGTTATTAGTTACCGT+TGG + Chr1:39926905-39926924 MsG0180002532.01.T01:intron 25.0%
!!! CGAAATAGATGTTTTTAAAG+GGG + Chr1:39926547-39926566 MsG0180002532.01.T01:intron 25.0%
AACTTCATCTCAATTTCCAA+CGG - Chr1:39926924-39926943 None:intergenic 30.0%
ATATTCAGATGTTTGGAAGA+AGG + Chr1:39926974-39926993 MsG0180002532.01.T01:intron 30.0%
CCTGCTTCAAAATGAAATTT+CGG - Chr1:39926302-39926321 None:intergenic 30.0%
CTCAAAATTTCTGCTTGTAA+AGG + Chr1:39925713-39925732 MsG0180002532.01.T01:CDS 30.0%
TACTGGAATTTCCTTAAAAG+TGG - Chr1:39926331-39926350 None:intergenic 30.0%
TGAAGATATTCTCATTTGTG+AGG + Chr1:39925801-39925820 MsG0180002532.01.T01:intron 30.0%
TTCACATCACATAATTTCAC+TGG - Chr1:39927022-39927041 None:intergenic 30.0%
TTGATCGGAAAGTTATTGAA+AGG + Chr1:39925687-39925706 MsG0180002532.01.T01:CDS 30.0%
! ATCATTTTAAACCGTCTGAT+TGG - Chr1:39927166-39927185 None:intergenic 30.0%
! TTGATGATAGTCTCATTGAT+CGG + Chr1:39925672-39925691 MsG0180002532.01.T01:CDS 30.0%
AACTCATAACCAGTCATTTC+TGG - Chr1:39926174-39926193 None:intergenic 35.0%
ATAACAAGATCCACCTTCAA+AGG - Chr1:39926135-39926154 None:intergenic 35.0%
GTAAAGGTGAGTTTGTGATT+TGG + Chr1:39925729-39925748 MsG0180002532.01.T01:intron 35.0%
TATAACAGTACCTGTCTATG+CGG - Chr1:39926383-39926402 None:intergenic 35.0%
TCAGAAGACATAATCACTAC+TGG - Chr1:39926348-39926367 None:intergenic 35.0%
! TCTGATGGTTCTATTGTATG+TGG + Chr1:39926015-39926034 MsG0180002532.01.T01:intron 35.0%
! TTCTGAAGAGGTTCATGTAT+TGG + Chr1:39925646-39925665 MsG0180002532.01.T01:CDS 35.0%
!!! AATCAGAGCACTGCAATTTT+TGG + Chr1:39925963-39925982 MsG0180002532.01.T01:CDS 35.0%
!!! ATCAGAGCACTGCAATTTTT+GGG + Chr1:39925964-39925983 MsG0180002532.01.T01:CDS 35.0%
!!! CCGAAATTTCATTTTGAAGC+AGG + Chr1:39926299-39926318 MsG0180002532.01.T01:intron 35.0%
AGAGAGAAGTCTGAATCTGA+TGG + Chr1:39926000-39926019 MsG0180002532.01.T01:CDS 40.0%
ATAACAGTACCTGTCTATGC+GGG - Chr1:39926382-39926401 None:intergenic 40.0%
ATGTGATGTGAAACGACTGA+AGG + Chr1:39927030-39927049 MsG0180002532.01.T01:CDS 40.0%
GAAGGGTTACATGACAACAA+GGG + Chr1:39927048-39927067 MsG0180002532.01.T01:CDS 40.0%
GAGTGATTACATGCTTCTTC+TGG - Chr1:39927106-39927125 None:intergenic 40.0%
GTGAACTTTAGTTACTGCTG+TGG + Chr1:39925933-39925952 MsG0180002532.01.T01:intron 40.0%
TATTGCATGCCAGAAATGAC+TGG + Chr1:39926162-39926181 MsG0180002532.01.T01:CDS 40.0%
TGAAGGGTTACATGACAACA+AGG + Chr1:39927047-39927066 MsG0180002532.01.T01:CDS 40.0%
TGCTTGATTCTCCAATCAGA+CGG + Chr1:39927152-39927171 MsG0180002532.01.T01:CDS 40.0%
TGTGATGTGAAACGACTGAA+GGG + Chr1:39927031-39927050 MsG0180002532.01.T01:CDS 40.0%
TTAGTTACTGCTGTGGATAG+TGG + Chr1:39925940-39925959 MsG0180002532.01.T01:intron 40.0%
! ATGTTTGGAAGAAGGTGCAA+AGG + Chr1:39926982-39927001 MsG0180002532.01.T01:CDS 40.0%
! TTTGTTGCCTTAGCCTTTGA+AGG + Chr1:39926119-39926138 MsG0180002532.01.T01:intron 40.0%
!!! TCAGAGCACTGCAATTTTTG+GGG + Chr1:39925965-39925984 MsG0180002532.01.T01:CDS 40.0%
AGATCCACCTTCAAAGGCTA+AGG - Chr1:39926129-39926148 None:intergenic 45.0%
GATTGGAGAATCAAGCACAC+TGG - Chr1:39927149-39927168 None:intergenic 45.0%
TAACAGTACCTGTCTATGCG+GGG - Chr1:39926381-39926400 None:intergenic 45.0%
TACATGACAACAAGGGAGGT+TGG + Chr1:39927055-39927074 MsG0180002532.01.T01:CDS 45.0%
!! GCAGGAATCGTCCACTTTTA+AGG + Chr1:39926317-39926336 MsG0180002532.01.T01:intron 45.0%
!!! AGCACTGCAATTTTTGGGGT+TGG + Chr1:39925969-39925988 MsG0180002532.01.T01:CDS 45.0%
!! TAATTTATACTTATATATAA+TGG - Chr1:39926737-39926756 None:intergenic 5.0%
!!! ATTTTTTTTAAACTTTTTTA+AGG + Chr1:39926402-39926421 MsG0180002532.01.T01:intron 5.0%
!!! TTTTTTTTAAACTTTTTTAA+GGG + Chr1:39926403-39926422 MsG0180002532.01.T01:intron 5.0%
ACAACAAGGGAGGTTGGAGT+AGG + Chr1:39927061-39927080 MsG0180002532.01.T01:CDS 50.0%
AGCACACTGGATGCAGACAA+TGG - Chr1:39927136-39927155 None:intergenic 50.0%
ATATTCTGCCCCGCATAGAC+AGG + Chr1:39926370-39926389 MsG0180002532.01.T01:CDS 50.0%
GGGTTACATGACAACAAGGG+AGG + Chr1:39927051-39927070 MsG0180002532.01.T01:CDS 50.0%
! GTTGCCTTAGCCTTTGAAGG+TGG + Chr1:39926122-39926141 MsG0180002532.01.T01:intron 50.0%
Chromosome Type Strat End Strand Name
Chr1 gene 39925635 39927198 39925635 ID=MsG0180002532.01;Name=MsG0180002532.01
Chr1 mRNA 39925635 39927198 39925635 ID=MsG0180002532.01.T01;Parent=MsG0180002532.01;Name=MsG0180002532.01.T01;_AED=0.46;_eAED=0.46;_QI=0|0|0|1|1|1|5|0|183
Chr1 exon 39925635 39925734 39925635 ID=MsG0180002532.01.T01:exon:7412;Parent=MsG0180002532.01.T01
Chr1 exon 39925944 39926029 39925944 ID=MsG0180002532.01.T01:exon:7413;Parent=MsG0180002532.01.T01
Chr1 exon 39926132 39926209 39926132 ID=MsG0180002532.01.T01:exon:7414;Parent=MsG0180002532.01.T01
Chr1 exon 39926321 39926391 39926321 ID=MsG0180002532.01.T01:exon:7415;Parent=MsG0180002532.01.T01
Chr1 exon 39926982 39927198 39926982 ID=MsG0180002532.01.T01:exon:7416;Parent=MsG0180002532.01.T01
Chr1 CDS 39925635 39925734 39925635 ID=MsG0180002532.01.T01:cds;Parent=MsG0180002532.01.T01
Chr1 CDS 39925944 39926029 39925944 ID=MsG0180002532.01.T01:cds;Parent=MsG0180002532.01.T01
Chr1 CDS 39926132 39926209 39926132 ID=MsG0180002532.01.T01:cds;Parent=MsG0180002532.01.T01
Chr1 CDS 39926321 39926391 39926321 ID=MsG0180002532.01.T01:cds;Parent=MsG0180002532.01.T01
Chr1 CDS 39926982 39927198 39926982 ID=MsG0180002532.01.T01:cds;Parent=MsG0180002532.01.T01
Gene Sequence

>MsG0180002532.01.T01

ATGGAGACAAATTCTGAAGAGGTTCATGTATTGGCTGTTGATGATAGTCTCATTGATCGGAAAGTTATTGAAAGGTTGCTCAAAATTTCTGCTTGTAAAGTTACTGCTGTGGATAGTGGAATCAGAGCACTGCAATTTTTGGGGTTGGATGAGCAGAGAGAGAAGTCTGAATCTGATGGTTCTATTCCTTTGAAGGTGGATCTTGTTATTACAGATTATTGCATGCCAGAAATGACTGGTTATGAGTTGCTCAAAAAAATTAAGGAATCGTCCACTTTTAAGGAAATTCCAGTAGTGATTATGTCTTCTGAAAATATTCTGCCCCGCATAGACAGATGTTTGGAAGAAGGTGCAAAGGATTTTATAATAAAGCCAGTGAAATTATGTGATGTGAAACGACTGAAGGGTTACATGACAACAAGGGAGGTTGGAGTAGGAATCAACAACAAACAGAAGCCAGAAGAAGCATGTAATCACTCATCATCTCCATTGTCTGCATCCAGTGTGCTTGATTCTCCAATCAGACGGTTTAAAATGATTGACACCGAATGA
Protein sequence

>MsG0180002532.01.T01

METNSEEVHVLAVDDSLIDRKVIERLLKISACKVTAVDSGIRALQFLGLDEQREKSESDGSIPLKVDLVITDYCMPEMTGYELLKKIKESSTFKEIPVVIMSSENILPRIDRCLEEGAKDFIIKPVKLCDVKRLKGYMTTREVGVGINNKQKPEEACNHSSSPLSASSVLDSPIRRFKMIDTE*