AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880047048.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880047048.01.T01 MTR_4g119860 95.726 117 5 0 9 125 10 126 1.15e-78 228
MsG0880047048.01.T01 MTR_7g113080 58.333 120 43 2 9 124 10 126 1.06e-41 134
MsG0880047048.01.T01 MTR_7g108600 50.427 117 47 2 13 124 6 116 4.62e-32 110
MsG0880047048.01.T01 MTR_4g088685 44.531 128 46 4 2 125 3 109 3.45e-27 97.4
MsG0880047048.01.T01 MTR_3g084350 44.167 120 56 5 10 125 16 128 4.99e-23 87.4
MsG0880047048.01.T01 MTR_6g060260 39.837 123 48 4 5 125 5 103 6.23e-22 84.0
MsG0880047048.01.T01 MTR_8g083150 36.800 125 63 4 4 124 4 116 7.66e-14 63.5
MsG0880047048.01.T01 MTR_8g083150 36.800 125 63 4 4 124 4 116 7.94e-14 63.5
MsG0880047048.01.T01 MTR_5g017160 48.101 79 34 3 54 125 50 128 4.56e-11 56.6
MsG0880047048.01.T02 MTR_4g119860 95.726 117 5 0 2 118 10 126 1.66e-78 227
MsG0880047048.01.T02 MTR_7g113080 58.333 120 43 2 2 117 10 126 6.56e-42 134
MsG0880047048.01.T02 MTR_7g108600 50.427 117 47 2 6 117 6 116 3.73e-32 109
MsG0880047048.01.T02 MTR_4g088685 44.628 121 43 3 2 118 9 109 7.98e-27 96.3
MsG0880047048.01.T02 MTR_3g084350 44.167 120 56 5 3 118 16 128 3.25e-23 87.8
MsG0880047048.01.T02 MTR_6g060260 41.176 119 46 5 2 118 7 103 8.16e-22 83.2
MsG0880047048.01.T02 MTR_8g083150 37.500 120 59 4 2 117 9 116 1.83e-13 62.4
MsG0880047048.01.T02 MTR_8g083150 37.500 120 59 4 2 117 9 116 2.00e-13 62.0
MsG0880047048.01.T02 MTR_5g017160 48.101 79 34 3 47 118 50 128 5.23e-11 56.2
MsG0880047048.01.T03 MTR_4g119860 100.000 60 0 0 1 60 67 126 6.78e-38 122
MsG0880047048.01.T03 MTR_7g113080 86.207 58 8 0 2 59 69 126 6.48e-32 107
MsG0880047048.01.T03 MTR_7g108600 74.138 58 15 0 2 59 59 116 5.78e-27 94.4
MsG0880047048.01.T03 MTR_4g088685 66.129 62 19 1 1 60 48 109 2.46e-24 87.4
MsG0880047048.01.T03 MTR_3g084350 65.574 61 19 2 1 60 69 128 3.51e-21 80.1
MsG0880047048.01.T03 MTR_6g060260 58.333 60 20 1 1 60 49 103 3.14e-19 74.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880047048.01.T01 AT4G15800 61.157 121 36 3 5 125 7 116 7.17e-44 139
MsG0880047048.01.T01 AT3G16570 57.031 128 38 2 9 125 16 137 9.92e-40 130
MsG0880047048.01.T01 AT3G16570 57.031 128 38 2 9 125 16 137 9.92e-40 130
MsG0880047048.01.T01 AT3G16570 57.031 128 38 2 9 125 16 137 9.92e-40 130
MsG0880047048.01.T01 AT1G02900 53.719 121 45 4 9 124 5 119 6.30e-34 114
MsG0880047048.01.T01 AT3G05490 57.627 118 36 3 13 125 11 119 1.27e-30 106
MsG0880047048.01.T01 AT2G33775 68.116 69 21 1 58 125 39 107 7.80e-28 99.0
MsG0880047048.01.T01 AT1G28270 47.107 121 46 4 7 125 3 107 2.88e-26 95.1
MsG0880047048.01.T01 AT4G13950 42.373 118 48 5 10 125 7 106 3.49e-20 79.7
MsG0880047048.01.T01 AT3G23805 62.069 58 20 2 69 125 55 111 1.94e-16 70.1
MsG0880047048.01.T01 AT4G14010 36.667 120 54 6 10 125 14 115 1.32e-12 60.1
MsG0880047048.01.T02 AT4G15800 62.609 115 34 2 4 118 11 116 1.15e-43 139
MsG0880047048.01.T02 AT3G16570 57.031 128 38 2 2 118 16 137 8.37e-40 130
MsG0880047048.01.T02 AT3G16570 57.031 128 38 2 2 118 16 137 8.37e-40 130
MsG0880047048.01.T02 AT3G16570 57.031 128 38 2 2 118 16 137 8.37e-40 130
MsG0880047048.01.T02 AT1G02900 53.719 121 45 4 2 117 5 119 4.64e-34 114
MsG0880047048.01.T02 AT3G05490 57.627 118 36 3 6 118 11 119 1.31e-30 105
MsG0880047048.01.T02 AT2G33775 68.116 69 21 1 51 118 39 107 6.76e-28 99.0
MsG0880047048.01.T02 AT1G28270 47.059 119 45 4 2 118 5 107 3.78e-26 94.4
MsG0880047048.01.T02 AT4G13950 42.373 118 48 5 3 118 7 106 2.85e-20 79.7
MsG0880047048.01.T02 AT3G23805 62.069 58 20 2 62 118 55 111 1.61e-16 70.1
MsG0880047048.01.T02 AT4G14010 36.667 120 54 6 3 118 14 115 9.61e-13 60.5
MsG0880047048.01.T03 AT4G15800 89.831 59 6 0 2 60 58 116 1.75e-32 108
MsG0880047048.01.T03 AT3G16570 91.379 58 5 0 3 60 80 137 1.48e-31 106
MsG0880047048.01.T03 AT3G16570 91.379 58 5 0 3 60 80 137 1.48e-31 106
MsG0880047048.01.T03 AT3G16570 91.379 58 5 0 3 60 80 137 1.48e-31 106
MsG0880047048.01.T03 AT3G05490 77.966 59 13 0 2 60 61 119 1.30e-28 98.6
MsG0880047048.01.T03 AT1G02900 77.586 58 13 0 2 59 62 119 1.03e-27 96.3
MsG0880047048.01.T03 AT2G33775 73.770 61 15 1 1 60 47 107 9.38e-25 88.6
MsG0880047048.01.T03 AT1G28270 67.213 61 19 1 1 60 47 107 1.25e-21 80.5
MsG0880047048.01.T03 AT4G13950 59.016 61 23 2 1 60 47 106 8.94e-18 70.9
MsG0880047048.01.T03 AT3G23805 62.069 58 20 2 4 60 55 111 1.20e-16 68.2

Find 41 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATGGATTCTGAGAGCAAC+AGG 0.416498 8:+81334269 MsG0880047048.01.T01:CDS
TAATTGTCGGCCTGGTGCTC+AGG 0.420371 8:+81334378 MsG0880047048.01.T01:CDS
GTGCTTCTTATTATAATTGT+CGG 0.423020 8:+81334365 MsG0880047048.01.T01:CDS
CTCAGTTTCATCTTCATCTC+CGG 0.447217 8:-81334242 None:intergenic
GGAGTCCGACGGGAGGAAGA+AGG 0.482366 8:-81334182 None:intergenic
CCGTCGGACTCCGGCTGCCG+TGG 0.488036 8:+81334193 MsG0880047048.01.T01:CDS
TTCTTCCTCCCGTCGGACTC+CGG 0.491619 8:+81334184 MsG0880047048.01.T01:CDS
GGAGGAAGAAGGAGCTGAGC+TGG 0.494801 8:-81334171 None:intergenic
TGCGATGGATCCACGGCAGC+CGG 0.495967 8:-81334203 None:intergenic
TTATTATGTACTACGAGTAA+TGG 0.501325 8:+81334536 MsG0880047048.01.T04:CDS
TCTTATTATAATTGTCGGCC+TGG 0.507188 8:+81334370 MsG0880047048.01.T01:CDS
GCAGTGCCATCACTCGATGC+AGG 0.524333 8:+81334422 MsG0880047048.01.T01:CDS
AGATGAAACTGAGTTTATGA+TGG 0.528256 8:+81334252 MsG0880047048.01.T01:CDS
GAAGGAGCTGAGCTGGTTGT+CGG 0.531077 8:-81334164 None:intergenic
TAAGGATTAGCCTGAGCACC+AGG 0.532157 8:-81334388 None:intergenic
CACGGCAGCCGGAGTCCGAC+GGG 0.532407 8:-81334192 None:intergenic
GCTGGTTGTCGGTGAAATCA+AGG 0.536840 8:-81334153 None:intergenic
GAGTGATGGCACTGCATCCA+CGG 0.542603 8:-81334414 None:intergenic
GCACTGCATCCACGGCGGTA+AGG 0.551017 8:-81334406 None:intergenic
GCAAGAAGGTATATTAGCTA+TGG 0.559047 8:+81334304 MsG0880047048.01.T01:CDS
GTCGGTGAAATCAAGGGTGG+AGG 0.561416 8:-81334146 None:intergenic
CAGCTCCTTCTTCCTCCCGT+CGG 0.563547 8:+81334177 MsG0880047048.01.T01:CDS
TTAGCTATGGTGCGCTGAGG+AGG 0.572142 8:+81334317 MsG0880047048.01.T01:CDS
CCACGGCAGCCGGAGTCCGA+CGG 0.574419 8:-81334193 None:intergenic
TCAACGCCTGCATCGAGTGA+TGG 0.583534 8:-81334428 None:intergenic
TGCACTCTGCGATGGATCCA+CGG 0.587914 8:-81334210 None:intergenic
GAAGCACCACGTCTTGAGCA+AGG 0.588288 8:-81334349 None:intergenic
GAGAAGACTGCACTCTGCGA+TGG 0.593105 8:-81334218 None:intergenic
AAGCACCACGTCTTGAGCAA+GGG 0.613382 8:-81334348 None:intergenic
ATGATGAAAGTGACACGTGG+AGG 0.620764 8:-81334123 None:intergenic
TGATGAAAGTGACACGTGGA+GGG 0.626032 8:-81334122 None:intergenic
CAGGCTAATCCTTACCGCCG+TGG 0.626471 8:+81334397 MsG0880047048.01.T01:CDS
GGCAGCCGGAGTCCGACGGG+AGG 0.633730 8:-81334189 None:intergenic
GCAGAGTGCAGTCTTCTCGC+CGG 0.644784 8:+81334223 MsG0880047048.01.T01:CDS
CTGGTTGTCGGTGAAATCAA+GGG 0.650378 8:-81334152 None:intergenic
ACTGTCCCTTGCTCAAGACG+TGG 0.665357 8:+81334343 MsG0880047048.01.T01:CDS
GTTGTCGGTGAAATCAAGGG+TGG 0.683736 8:-81334149 None:intergenic
ATATTAGCTATGGTGCGCTG+AGG 0.691098 8:+81334314 MsG0880047048.01.T01:CDS
AAGAAAAGAAGAAAACACAC+AGG 0.720832 8:-81334088 None:intergenic
AGGATGATGAAAGTGACACG+TGG 0.737888 8:-81334126 None:intergenic
TGATGGCACTGCATCCACGG+CGG 0.766443 8:-81334411 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GTGCTTCTTATTATAATTGT+CGG + Chr8:81334365-81334384 MsG0880047048.01.T01:CDS 25.0%
! TTATTATGTACTACGAGTAA+TGG + Chr8:81334536-81334555 MsG0880047048.01.T04:CDS 25.0%
AAGAAAAGAAGAAAACACAC+AGG - Chr8:81334091-81334110 None:intergenic 30.0%
AGATGAAACTGAGTTTATGA+TGG + Chr8:81334252-81334271 MsG0880047048.01.T01:CDS 30.0%
ATGCTACTACATATACAAGT+AGG + Chr8:81334560-81334579 MsG0880047048.01.T04:CDS 30.0%
TCTTATTATAATTGTCGGCC+TGG + Chr8:81334370-81334389 MsG0880047048.01.T01:CDS 35.0%
! GCAAGAAGGTATATTAGCTA+TGG + Chr8:81334304-81334323 MsG0880047048.01.T01:CDS 35.0%
CTCAGTTTCATCTTCATCTC+CGG - Chr8:81334245-81334264 None:intergenic 40.0%
AGGATGATGAAAGTGACACG+TGG - Chr8:81334129-81334148 None:intergenic 45.0%
ATATTAGCTATGGTGCGCTG+AGG + Chr8:81334314-81334333 MsG0880047048.01.T01:CDS 45.0%
ATGATGAAAGTGACACGTGG+AGG - Chr8:81334126-81334145 None:intergenic 45.0%
CTGGTTGTCGGTGAAATCAA+GGG - Chr8:81334155-81334174 None:intergenic 45.0%
TGATGAAAGTGACACGTGGA+GGG - Chr8:81334125-81334144 None:intergenic 45.0%
!! TGATGGATTCTGAGAGCAAC+AGG + Chr8:81334269-81334288 MsG0880047048.01.T01:CDS 45.0%
AAGCACCACGTCTTGAGCAA+GGG - Chr8:81334351-81334370 None:intergenic 50.0%
GCTGGTTGTCGGTGAAATCA+AGG - Chr8:81334156-81334175 None:intergenic 50.0%
GTTGTCGGTGAAATCAAGGG+TGG - Chr8:81334152-81334171 None:intergenic 50.0%
!! GGCGCATTTTAGCAGCAAGA+AGG + Chr8:81334290-81334309 MsG0880047048.01.T01:CDS 50.0%
!! TAAGGATTAGCCTGAGCACC+AGG - Chr8:81334391-81334410 None:intergenic 50.0%
ACTGTCCCTTGCTCAAGACG+TGG + Chr8:81334343-81334362 MsG0880047048.01.T01:CDS 55.0%
GAAGGAGCTGAGCTGGTTGT+CGG - Chr8:81334167-81334186 None:intergenic 55.0%
GAGAAGACTGCACTCTGCGA+TGG - Chr8:81334221-81334240 None:intergenic 55.0%
GAGTGATGGCACTGCATCCA+CGG - Chr8:81334417-81334436 None:intergenic 55.0%
GTCGGTGAAATCAAGGGTGG+AGG - Chr8:81334149-81334168 None:intergenic 55.0%
TAATTGTCGGCCTGGTGCTC+AGG + Chr8:81334378-81334397 MsG0880047048.01.T01:CDS 55.0%
TCAACGCCTGCATCGAGTGA+TGG - Chr8:81334431-81334450 None:intergenic 55.0%
TGCACTCTGCGATGGATCCA+CGG - Chr8:81334213-81334232 None:intergenic 55.0%
TTAGCTATGGTGCGCTGAGG+AGG + Chr8:81334317-81334336 MsG0880047048.01.T01:CDS 55.0%
! GAAGCACCACGTCTTGAGCA+AGG - Chr8:81334352-81334371 None:intergenic 55.0%
CAGCTCCTTCTTCCTCCCGT+CGG + Chr8:81334177-81334196 MsG0880047048.01.T01:CDS 60.0%
CAGGCTAATCCTTACCGCCG+TGG + Chr8:81334397-81334416 MsG0880047048.01.T01:CDS 60.0%
GCAGAGTGCAGTCTTCTCGC+CGG + Chr8:81334223-81334242 MsG0880047048.01.T01:CDS 60.0%
GCAGTGCCATCACTCGATGC+AGG + Chr8:81334422-81334441 MsG0880047048.01.T01:CDS 60.0%
GGAGGAAGAAGGAGCTGAGC+TGG - Chr8:81334174-81334193 None:intergenic 60.0%
TGATGGCACTGCATCCACGG+CGG - Chr8:81334414-81334433 None:intergenic 60.0%
TTCTTCCTCCCGTCGGACTC+CGG + Chr8:81334184-81334203 MsG0880047048.01.T01:CDS 60.0%
GCACTGCATCCACGGCGGTA+AGG - Chr8:81334409-81334428 None:intergenic 65.0%
GGAGTCCGACGGGAGGAAGA+AGG - Chr8:81334185-81334204 None:intergenic 65.0%
TGCGATGGATCCACGGCAGC+CGG - Chr8:81334206-81334225 None:intergenic 65.0%
CACGGCAGCCGGAGTCCGAC+GGG - Chr8:81334195-81334214 None:intergenic 75.0%
CCACGGCAGCCGGAGTCCGA+CGG - Chr8:81334196-81334215 None:intergenic 75.0%
! CCGTCGGACTCCGGCTGCCG+TGG + Chr8:81334193-81334212 MsG0880047048.01.T01:CDS 80.0%
! GGCAGCCGGAGTCCGACGGG+AGG - Chr8:81334192-81334211 None:intergenic 80.0%
Chromosome Type Strat End Strand Name
Chr8 gene 81334073 81334581 81334073 ID=MsG0880047048.01;Name=MsG0880047048.01
Chr8 mRNA 81334073 81334450 81334073 ID=MsG0880047048.01.T01;Parent=MsG0880047048.01;Name=MsG0880047048.01.T01;_AED=0.30;_eAED=0.30;_QI=0|-1|0|1|-1|0|1|0|125
Chr8 exon 81334073 81334450 81334073 ID=MsG0880047048.01.T01:exon:34880;Parent=MsG0880047048.01.T01
Chr8 CDS 81334073 81334450 81334073 ID=MsG0880047048.01.T01:cds;Parent=MsG0880047048.01.T01
Chr8 mRNA 81334094 81334450 81334094 ID=MsG0880047048.01.T02;Parent=MsG0880047048.01;Name=MsG0880047048.01.T02;_AED=0.31;_eAED=0.31;_QI=0|-1|0|1|-1|0|1|0|118
Chr8 exon 81334094 81334450 81334094 ID=MsG0880047048.01.T02:exon:34881;Parent=MsG0880047048.01.T02
Chr8 CDS 81334094 81334450 81334094 ID=MsG0880047048.01.T02:cds;Parent=MsG0880047048.01.T02
Chr8 mRNA 81334268 81334450 81334268 ID=MsG0880047048.01.T03;Parent=MsG0880047048.01;Name=MsG0880047048.01.T03;_AED=0.40;_eAED=0.40;_QI=0|-1|0|1|-1|0|1|0|60
Chr8 exon 81334268 81334450 81334268 ID=MsG0880047048.01.T03:exon:34882;Parent=MsG0880047048.01.T03
Chr8 CDS 81334268 81334450 81334268 ID=MsG0880047048.01.T03:cds;Parent=MsG0880047048.01.T03
Chr8 mRNA 81334420 81334581 81334420 ID=MsG0880047048.01.T04;Parent=MsG0880047048.01;Name=MsG0880047048.01.T04;_AED=0.42;_eAED=0.42;_QI=0|-1|0|1|-1|0|1|0|53
Chr8 exon 81334420 81334581 81334420 ID=MsG0880047048.01.T04:exon:34883;Parent=MsG0880047048.01.T04
Chr8 CDS 81334420 81334581 81334420 ID=MsG0880047048.01.T04:cds;Parent=MsG0880047048.01.T04
Gene Sequence

>MsG0880047048.01.T04

ATGCAGTGCCATCACTCGATGCAGGCGTTGAAATTCTTGTTATTCTCATTTTCTCTAATTTATTTTTTATTTTTATATATATATTTTGTAATTGATTATCATGATGATAGATCTTGTTATTATGTACTACGAGTAATGGTATGCTACTACATATACAAGTAG

>MsG0880047048.01.T01

GAGAACGAGAAACAACCTGTGTGTTTTCTTCTTTTCTTTTCAATCTTAGCCCTCCACGTGTCACTTTCATCATCCTCCACCCTTGATTTCACCGACAACCAGCTCAGCTCCTTCTTCCTCCCGTCGGACTCCGGCTGCCGTGGATCCATCGCAGAGTGCAGTCTTCTCGCCGGAGATGAAGATGAAACTGAGTTTATGATGGATTCTGAGAGCAACAGGCGCATTTTAGCAGCAAGAAGGTATATTAGCTATGGTGCGCTGAGGAGGAACACTGTCCCTTGCTCAAGACGTGGTGCTTCTTATTATAATTGTCGGCCTGGTGCTCAGGCTAATCCTTACCGCCGTGGATGCAGTGCCATCACTCGATGCAGGCGTTGA

>MsG0880047048.01.T02

TGTTTTCTTCTTTTCTTTTCAATCTTAGCCCTCCACGTGTCACTTTCATCATCCTCCACCCTTGATTTCACCGACAACCAGCTCAGCTCCTTCTTCCTCCCGTCGGACTCCGGCTGCCGTGGATCCATCGCAGAGTGCAGTCTTCTCGCCGGAGATGAAGATGAAACTGAGTTTATGATGGATTCTGAGAGCAACAGGCGCATTTTAGCAGCAAGAAGGTATATTAGCTATGGTGCGCTGAGGAGGAACACTGTCCCTTGCTCAAGACGTGGTGCTTCTTATTATAATTGTCGGCCTGGTGCTCAGGCTAATCCTTACCGCCGTGGATGCAGTGCCATCACTCGATGCAGGCGTTGA

>MsG0880047048.01.T03

ATGATGGATTCTGAGAGCAACAGGCGCATTTTAGCAGCAAGAAGGTATATTAGCTATGGTGCGCTGAGGAGGAACACTGTCCCTTGCTCAAGACGTGGTGCTTCTTATTATAATTGTCGGCCTGGTGCTCAGGCTAATCCTTACCGCCGTGGATGCAGTGCCATCACTCGATGCAGGCGTTGA

Protein sequence

>MsG0880047048.01.T04

MQCHHSMQALKFLLFSFSLIYFLFLYIYFVIDYHDDRSCYYVLRVMVCYYIYK*

>MsG0880047048.01.T01

ENEKQPVCFLLFFSILALHVSLSSSSTLDFTDNQLSSFFLPSDSGCRGSIAECSLLAGDEDETEFMMDSESNRRILAARRYISYGALRRNTVPCSRRGASYYNCRPGAQANPYRRGCSAITRCRR*

>MsG0880047048.01.T02

CFLLFFSILALHVSLSSSSTLDFTDNQLSSFFLPSDSGCRGSIAECSLLAGDEDETEFMMDSESNRRILAARRYISYGALRRNTVPCSRRGASYYNCRPGAQANPYRRGCSAITRCRR*

>MsG0880047048.01.T03

MMDSESNRRILAARRYISYGALRRNTVPCSRRGASYYNCRPGAQANPYRRGCSAITRCRR*