AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580026022.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580026022.01.T01 MTR_5g006240 59.031 227 73 2 1 207 1 227 6.58e-92 268
MsG0580026022.01.T01 MTR_5g037840 72.727 132 11 1 101 207 1 132 1.44e-61 188
MsG0580026022.01.T01 MTR_5g037810 71.212 132 13 1 101 207 1 132 4.40e-60 184
MsG0580026022.01.T01 MTR_5g094680 37.879 198 106 6 27 207 25 222 1.33e-33 120
MsG0580026022.01.T01 MTR_5g037850 44.094 127 61 1 3 129 2 118 8.90e-28 102
MsG0580026022.01.T01 MTR_8g085520 39.474 152 65 5 77 207 6 151 2.20e-24 94.7
MsG0580026022.01.T01 MTR_8g085550 39.865 148 70 5 77 207 6 151 4.79e-24 93.2
MsG0580026022.01.T01 MTR_1g029860 39.130 138 72 4 76 206 46 178 1.62e-22 90.1
MsG0580026022.01.T01 MTR_5g037830 41.748 103 50 1 3 105 2 94 2.83e-19 79.3
MsG0580026022.01.T01 MTR_1g029910 33.721 172 89 5 46 206 37 194 2.14e-18 79.7
MsG0580026022.01.T01 MTR_7g093310 34.437 151 85 5 59 207 1 139 5.69e-17 74.7
MsG0580026022.01.T01 MTR_8g085530 64.151 53 17 1 155 205 245 297 6.47e-17 77.4
MsG0580026022.01.T01 MTR_8g102170 36.691 139 69 5 8 135 7 137 3.93e-15 69.7
MsG0580026022.01.T03 MTR_5g006240 63.436 227 80 2 1 224 1 227 1.74e-97 283
MsG0580026022.01.T03 MTR_5g037840 84.848 132 12 1 101 224 1 132 2.00e-76 226
MsG0580026022.01.T03 MTR_5g037810 82.576 132 15 1 101 224 1 132 7.57e-75 223
MsG0580026022.01.T03 MTR_5g094680 36.058 208 113 6 27 224 25 222 5.11e-33 119
MsG0580026022.01.T03 MTR_5g037850 44.094 127 61 1 3 129 2 118 2.01e-27 101
MsG0580026022.01.T03 MTR_8g085520 41.026 156 74 5 77 224 6 151 1.15e-26 101
MsG0580026022.01.T03 MTR_8g085550 40.789 152 80 4 77 224 6 151 2.25e-26 99.8
MsG0580026022.01.T03 MTR_1g029860 34.839 155 72 4 76 223 46 178 2.47e-20 85.1
MsG0580026022.01.T03 MTR_5g037830 41.748 103 50 1 3 105 2 94 5.71e-19 79.0
MsG0580026022.01.T03 MTR_8g085530 64.151 53 17 1 172 222 245 297 6.77e-17 78.2
MsG0580026022.01.T03 MTR_8g102170 37.762 143 70 5 8 139 7 141 1.21e-16 74.3
MsG0580026022.01.T03 MTR_1g029910 30.688 189 89 6 46 223 37 194 2.96e-16 74.3
MsG0580026022.01.T03 MTR_7g093310 30.952 168 85 4 59 224 1 139 1.57e-14 68.6
MsG0580026022.01.T02 MTR_5g006240 57.269 227 73 2 1 203 1 227 2.14e-89 262
MsG0580026022.01.T02 MTR_5g037840 71.212 132 9 1 101 203 1 132 1.25e-59 183
MsG0580026022.01.T02 MTR_5g037810 69.697 132 11 1 101 203 1 132 2.85e-58 180
MsG0580026022.01.T02 MTR_5g094680 35.859 198 106 6 27 203 25 222 6.03e-31 113
MsG0580026022.01.T02 MTR_5g037850 44.628 121 57 1 3 123 2 112 2.31e-26 98.2
MsG0580026022.01.T02 MTR_8g085520 38.158 152 63 5 77 203 6 151 3.71e-23 91.3
MsG0580026022.01.T02 MTR_8g085550 39.041 146 70 3 77 203 6 151 1.18e-22 89.7
MsG0580026022.01.T02 MTR_1g029860 39.552 134 73 4 76 202 46 178 2.09e-22 89.7
MsG0580026022.01.T02 MTR_1g029910 34.524 168 89 5 46 202 37 194 1.83e-20 85.1
MsG0580026022.01.T02 MTR_5g037830 41.748 103 50 1 3 105 2 94 3.32e-19 79.0
MsG0580026022.01.T02 MTR_7g093310 33.557 149 85 4 59 203 1 139 5.20e-17 74.7
MsG0580026022.01.T02 MTR_8g085530 64.151 53 17 1 151 201 245 297 6.25e-17 77.4
MsG0580026022.01.T02 MTR_8g102170 37.008 127 62 4 8 123 7 126 6.36e-15 68.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 42 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAACAAGTCCAACAAATTA+TGG 0.188220 5:-29268237 MsG0580026022.01.T03:CDS
TTGTTTGTCGGATCATGTTC+TGG 0.209035 5:+29268548 None:intergenic
CGAGTGCATTCTTCCATATT+TGG 0.263214 5:+29268383 None:intergenic
CCATAATTTGTTGGACTTGT+TGG 0.304501 5:+29268237 None:intergenic
AGATCTGATTCTACCAAATA+TGG 0.314815 5:-29268396 MsG0580026022.01.T03:CDS
AGAACAGTGTTCAATTTGTT+TGG 0.318551 5:-29268168 MsG0580026022.01.T03:CDS
AATGTATTGTTCCATGGATT+CGG 0.324161 5:-29268085 MsG0580026022.01.T03:CDS
TATGGACAGGACTCACATTT+AGG 0.380502 5:+29268657 None:intergenic
TATATAAGTTCAAATGATAA+TGG 0.383029 5:-29268260 MsG0580026022.01.T03:CDS
ATGTATTGTTCCATGGATTC+GGG 0.386613 5:-29268084 MsG0580026022.01.T03:CDS
CCAACAGACCCATAATTTGT+TGG 0.387189 5:+29268228 None:intergenic
AATTGTCCTTCTCGTGACTT+TGG 0.391512 5:-29268191 MsG0580026022.01.T03:CDS
TGTTTGTCGGATCATGTTCT+GGG 0.409755 5:+29268549 None:intergenic
TCTTGTGGATTATATAAGAT+TGG 0.411181 5:+29268632 None:intergenic
CACAAGACATTGCTACTTTG+AGG 0.423234 5:-29268616 MsG0580026022.01.T03:CDS
ATCTTATGCAATTGTATGTA+TGG 0.424672 5:-29268473 MsG0580026022.01.T03:CDS
TCATGTTGACACACTAGATA+TGG 0.441348 5:-29268303 MsG0580026022.01.T03:CDS
GATTATATAAGATTGGTCTA+TGG 0.449016 5:+29268639 None:intergenic
CAACAAGTCCAACAAATTAT+GGG 0.449453 5:-29268236 MsG0580026022.01.T03:CDS
CAATTGCATAAGATATCAAT+AGG 0.456377 5:+29268482 None:intergenic
GTTGATTGTAGTTGTAAAGT+TGG 0.466309 5:+29268520 None:intergenic
ACAAGACATTGCTACTTTGA+GGG 0.480207 5:-29268615 MsG0580026022.01.T03:CDS
ACAAAGAATGTATTGTTCCA+TGG 0.480573 5:-29268091 MsG0580026022.01.T03:CDS
CCAACAAATTATGGGTCTGT+TGG 0.489893 5:-29268228 MsG0580026022.01.T03:CDS
GGAAGAATGCACTCGACAAA+TGG 0.496016 5:-29268375 MsG0580026022.01.T03:CDS
TTGACGCATTCCCGAATCCA+TGG 0.498056 5:+29268074 None:intergenic
ACAGTGTTCAATTTGTTTGG+AGG 0.506076 5:-29268165 MsG0580026022.01.T03:CDS
AAGTTGGACAAATTGTTTGT+CGG 0.517350 5:+29268536 None:intergenic
TATAAGATTGGTCTATGGAC+AGG 0.519396 5:+29268644 None:intergenic
CAAGACATTGCTACTTTGAG+GGG 0.533959 5:-29268614 MsG0580026022.01.T03:CDS
AACTACAATCAACAGAGTCT+TGG 0.543005 5:-29268510 MsG0580026022.01.T03:CDS
ATCAGATCTAATAAGTTAGT+CGG 0.544879 5:+29268410 None:intergenic
GCAGACGAAGGAACGATCCA+TGG 0.545631 5:+29268679 None:intergenic
CACACTAGATATGGTAGAAG+AGG 0.547125 5:-29268294 MsG0580026022.01.T03:CDS
CTCAAAGTAGCAATGTCTTG+TGG 0.575298 5:+29268617 None:intergenic
ATGGTCGCACTCAACAATGA+AGG 0.582431 5:-29268356 MsG0580026022.01.T03:CDS
ATTATTTGACTTCTACACAA+TGG 0.588909 5:+29268029 None:intergenic
GTTTGTCGGATCATGTTCTG+GGG 0.602354 5:+29268550 None:intergenic
AGAAAAGACGTTGTGTACGA+CGG 0.634042 5:+29268439 None:intergenic
TTTGTCGGATCATGTTCTGG+GGG 0.645602 5:+29268551 None:intergenic
TGTTCTCCAAAGTCACGAGA+AGG 0.657198 5:+29268185 None:intergenic
ACTCACATTTAGGCAGACGA+AGG 0.701700 5:+29268667 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATATAAGTTCAAATGATAA+TGG - Chr5:29268442-29268461 MsG0580026022.01.T03:CDS 15.0%
! ATCAGATCTAATAAGTTAGT+CGG + Chr5:29268295-29268314 None:intergenic 25.0%
! ATCTTATGCAATTGTATGTA+TGG - Chr5:29268229-29268248 MsG0580026022.01.T03:CDS 25.0%
! CAATTGCATAAGATATCAAT+AGG + Chr5:29268223-29268242 None:intergenic 25.0%
!! ATTATTTGACTTCTACACAA+TGG + Chr5:29268676-29268695 None:intergenic 25.0%
!! TCTTGTGGATTATATAAGAT+TGG + Chr5:29268073-29268092 None:intergenic 25.0%
!!! GATTATATAAGATTGGTCTA+TGG + Chr5:29268066-29268085 None:intergenic 25.0%
AAGTTGGACAAATTGTTTGT+CGG + Chr5:29268169-29268188 None:intergenic 30.0%
AATGTATTGTTCCATGGATT+CGG - Chr5:29268617-29268636 MsG0580026022.01.T03:CDS 30.0%
ACAAAGAATGTATTGTTCCA+TGG - Chr5:29268611-29268630 MsG0580026022.01.T03:CDS 30.0%
AGATCTGATTCTACCAAATA+TGG - Chr5:29268306-29268325 MsG0580026022.01.T03:CDS 30.0%
CAACAAGTCCAACAAATTAT+GGG - Chr5:29268466-29268485 MsG0580026022.01.T03:CDS 30.0%
GTTGATTGTAGTTGTAAAGT+TGG + Chr5:29268185-29268204 None:intergenic 30.0%
! AGAACAGTGTTCAATTTGTT+TGG - Chr5:29268534-29268553 MsG0580026022.01.T03:CDS 30.0%
AACTACAATCAACAGAGTCT+TGG - Chr5:29268192-29268211 MsG0580026022.01.T03:CDS 35.0%
ATGTATTGTTCCATGGATTC+GGG - Chr5:29268618-29268637 MsG0580026022.01.T03:CDS 35.0%
CCAACAAGTCCAACAAATTA+TGG - Chr5:29268465-29268484 MsG0580026022.01.T03:CDS 35.0%
TCATGTTGACACACTAGATA+TGG - Chr5:29268399-29268418 MsG0580026022.01.T03:CDS 35.0%
! ACAGTGTTCAATTTGTTTGG+AGG - Chr5:29268537-29268556 MsG0580026022.01.T03:CDS 35.0%
!! ACAAGACATTGCTACTTTGA+GGG - Chr5:29268087-29268106 MsG0580026022.01.T03:CDS 35.0%
!! CCATAATTTGTTGGACTTGT+TGG + Chr5:29268468-29268487 None:intergenic 35.0%
!! TATAAGATTGGTCTATGGAC+AGG + Chr5:29268061-29268080 None:intergenic 35.0%
AATTGTCCTTCTCGTGACTT+TGG - Chr5:29268511-29268530 MsG0580026022.01.T03:CDS 40.0%
AGAAAAGACGTTGTGTACGA+CGG + Chr5:29268266-29268285 None:intergenic 40.0%
CACACTAGATATGGTAGAAG+AGG - Chr5:29268408-29268427 MsG0580026022.01.T03:CDS 40.0%
CCAACAAATTATGGGTCTGT+TGG - Chr5:29268474-29268493 MsG0580026022.01.T03:CDS 40.0%
CGAGTGCATTCTTCCATATT+TGG + Chr5:29268322-29268341 None:intergenic 40.0%
CTCAAAGTAGCAATGTCTTG+TGG + Chr5:29268088-29268107 None:intergenic 40.0%
TATGGACAGGACTCACATTT+AGG + Chr5:29268048-29268067 None:intergenic 40.0%
TGTTTGTCGGATCATGTTCT+GGG + Chr5:29268156-29268175 None:intergenic 40.0%
TTGTTTGTCGGATCATGTTC+TGG + Chr5:29268157-29268176 None:intergenic 40.0%
! CCAACAGACCCATAATTTGT+TGG + Chr5:29268477-29268496 None:intergenic 40.0%
!! CAAGACATTGCTACTTTGAG+GGG - Chr5:29268088-29268107 MsG0580026022.01.T03:CDS 40.0%
!! CACAAGACATTGCTACTTTG+AGG - Chr5:29268086-29268105 MsG0580026022.01.T03:CDS 40.0%
ACTCACATTTAGGCAGACGA+AGG + Chr5:29268038-29268057 None:intergenic 45.0%
ATGGTCGCACTCAACAATGA+AGG - Chr5:29268346-29268365 MsG0580026022.01.T03:CDS 45.0%
GGAAGAATGCACTCGACAAA+TGG - Chr5:29268327-29268346 MsG0580026022.01.T03:CDS 45.0%
GTTTGTCGGATCATGTTCTG+GGG + Chr5:29268155-29268174 None:intergenic 45.0%
TGTTCTCCAAAGTCACGAGA+AGG + Chr5:29268520-29268539 None:intergenic 45.0%
TTTGTCGGATCATGTTCTGG+GGG + Chr5:29268154-29268173 None:intergenic 45.0%
TTGACGCATTCCCGAATCCA+TGG + Chr5:29268631-29268650 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr5 gene 29268025 29268699 29268025 ID=MsG0580026022.01;Name=MsG0580026022.01
Chr5 mRNA 29268025 29268699 29268025 ID=MsG0580026022.01.T01;Parent=MsG0580026022.01;Name=MsG0580026022.01.T01;_AED=0.04;_eAED=0.04;_QI=0|0|0|1|0|0|2|0|207
Chr5 exon 29268025 29268252 29268025 ID=MsG0580026022.01.T01:exon:33448;Parent=MsG0580026022.01.T01
Chr5 exon 29268304 29268699 29268304 ID=MsG0580026022.01.T01:exon:33447;Parent=MsG0580026022.01.T01
Chr5 CDS 29268304 29268699 29268304 ID=MsG0580026022.01.T01:cds;Parent=MsG0580026022.01.T01
Chr5 CDS 29268025 29268252 29268025 ID=MsG0580026022.01.T01:cds;Parent=MsG0580026022.01.T01
Chr5 mRNA 29268025 29268699 29268025 ID=MsG0580026022.01.T02;Parent=MsG0580026022.01;Name=MsG0580026022.01.T02;_AED=0.05;_eAED=0.05;_QI=0|0|0|1|0|0|2|0|203
Chr5 exon 29268025 29268268 29268025 ID=MsG0580026022.01.T02:exon:33450;Parent=MsG0580026022.01.T02
Chr5 exon 29268332 29268699 29268332 ID=MsG0580026022.01.T02:exon:33449;Parent=MsG0580026022.01.T02
Chr5 CDS 29268332 29268699 29268332 ID=MsG0580026022.01.T02:cds;Parent=MsG0580026022.01.T02
Chr5 CDS 29268025 29268268 29268025 ID=MsG0580026022.01.T02:cds;Parent=MsG0580026022.01.T02
Chr5 mRNA 29268025 29268699 29268025 ID=MsG0580026022.01.T03;Parent=MsG0580026022.01;Name=MsG0580026022.01.T03;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|224
Chr5 exon 29268025 29268699 29268025 ID=MsG0580026022.01.T03:exon:33451;Parent=MsG0580026022.01.T03
Chr5 CDS 29268025 29268699 29268025 ID=MsG0580026022.01.T03:cds;Parent=MsG0580026022.01.T03
Gene Sequence

>MsG0580026022.01.T01

ATGGATCGTTCCTTCGTCTGCCTAAATGTGAGTCCTGTCCATAGACCAATCTTATATAATCCACAAGACATTGCTACTTTGAGGGGTTTCTTCTTGATTGATTTTAATTTCACTCATGTAATTTTACCCCCAGAACATGATCCGACAAACAATTTGTCCAACTTTACAACTACAATCAACAGAGTCTTGGCGATTCCTATTGATATCTTATGCAATTGTATGTATGGAGTAAATAACACCGTCGTACACAACGTCTTTTCTTTAGTGCCGACTAACTTATTAGATCTGATTCTACCAAATATGGAAGAATGCACTCGACAAATGGTCGCACTCAACAATGAAGGACGTGACATATTAGAGATGAATATGTCGCTTCATGTTGACACACTAGATATGGTCCAACAAATTATGGGTCTGTTGGAAAATTTAGAAAATAATTGTCCTTCTCGTGACTTTGGAGAACAGTGTTCAATTTGTTTGGAGGAGTTTTGTACTAAGTTAGAACTTGCTTATACAAAATGCTCACATGTCTTTCACAAAGAATGTATTGTTCCATGGATTCGGGAATGCGTCAACAAATCATCTTTTTACTCTTGTCCATTGTGTAGAAGTCAAATAATATGA

>MsG0580026022.01.T03

ATGGATCGTTCCTTCGTCTGCCTAAATGTGAGTCCTGTCCATAGACCAATCTTATATAATCCACAAGACATTGCTACTTTGAGGGGTTTCTTCTTGATTGATTTTAATTTCACTCATGTAATTTTACCCCCAGAACATGATCCGACAAACAATTTGTCCAACTTTACAACTACAATCAACAGAGTCTTGGCGATTCCTATTGATATCTTATGCAATTGTATGTATGGAGTAAATAACACCGTCGTACACAACGTCTTTTCTTTAGTGCCGACTAACTTATTAGATCTGATTCTACCAAATATGGAAGAATGCACTCGACAAATGGTCGCACTCAACAATGAAGGACGTGACATATTAGAGATGAATATGTCGCTTCATGTTGACACACTAGATATGGTAGAAGAGGAAGAAGACGATTATATAAGTTCAAATGATAATGGCCAACAAGTCCAACAAATTATGGGTCTGTTGGAAAATTTAGAAAATAATTGTCCTTCTCGTGACTTTGGAGAACAGTGTTCAATTTGTTTGGAGGAGTTTTGTACTAAGTTAGAACTTGCTTATACAAAATGCTCACATGTCTTTCACAAAGAATGTATTGTTCCATGGATTCGGGAATGCGTCAACAAATCATCTTTTTACTCTTGTCCATTGTGTAGAAGTCAAATAATATGA

>MsG0580026022.01.T02

ATGGATCGTTCCTTCGTCTGCCTAAATGTGAGTCCTGTCCATAGACCAATCTTATATAATCCACAAGACATTGCTACTTTGAGGGGTTTCTTCTTGATTGATTTTAATTTCACTCATGTAATTTTACCCCCAGAACATGATCCGACAAACAATTTGTCCAACTTTACAACTACAATCAACAGAGTCTTGGCGATTCCTATTGATATCTTATGCAATTGTATGTATGGAGTAAATAACACCGTCGTACACAACGTCTTTTCTTTAGTGCCGACTAACTTATTAGATCTGATTCTACCAAATATGGAAGAATGCACTCGACAAATGGTCGCACTCAACAATGAAGGACGTGACATATTAGAGATGAATATTGATAATGGCCAACAAGTCCAACAAATTATGGGTCTGTTGGAAAATTTAGAAAATAATTGTCCTTCTCGTGACTTTGGAGAACAGTGTTCAATTTGTTTGGAGGAGTTTTGTACTAAGTTAGAACTTGCTTATACAAAATGCTCACATGTCTTTCACAAAGAATGTATTGTTCCATGGATTCGGGAATGCGTCAACAAATCATCTTTTTACTCTTGTCCATTGTGTAGAAGTCAAATAATATGA

Protein sequence

>MsG0580026022.01.T01

MDRSFVCLNVSPVHRPILYNPQDIATLRGFFLIDFNFTHVILPPEHDPTNNLSNFTTTINRVLAIPIDILCNCMYGVNNTVVHNVFSLVPTNLLDLILPNMEECTRQMVALNNEGRDILEMNMSLHVDTLDMVQQIMGLLENLENNCPSRDFGEQCSICLEEFCTKLELAYTKCSHVFHKECIVPWIRECVNKSSFYSCPLCRSQII*

>MsG0580026022.01.T03

MDRSFVCLNVSPVHRPILYNPQDIATLRGFFLIDFNFTHVILPPEHDPTNNLSNFTTTINRVLAIPIDILCNCMYGVNNTVVHNVFSLVPTNLLDLILPNMEECTRQMVALNNEGRDILEMNMSLHVDTLDMVEEEEDDYISSNDNGQQVQQIMGLLENLENNCPSRDFGEQCSICLEEFCTKLELAYTKCSHVFHKECIVPWIRECVNKSSFYSCPLCRSQII*

>MsG0580026022.01.T02

MDRSFVCLNVSPVHRPILYNPQDIATLRGFFLIDFNFTHVILPPEHDPTNNLSNFTTTINRVLAIPIDILCNCMYGVNNTVVHNVFSLVPTNLLDLILPNMEECTRQMVALNNEGRDILEMNIDNGQQVQQIMGLLENLENNCPSRDFGEQCSICLEEFCTKLELAYTKCSHVFHKECIVPWIRECVNKSSFYSCPLCRSQII*