AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene005762

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene005762.t1 MTR_1g090710 88.535 157 17 1 1 156 1 157 3.26e-99 282
MS.gene005762.t1 MTR_1g090697 72.436 156 43 0 1 156 1 156 5.56e-82 239
MS.gene005762.t1 MTR_5g047580 55.484 155 69 0 1 155 1 155 1.61e-58 179
MS.gene005762.t1 MTR_1g090783 57.143 154 66 0 3 156 2 155 1.21e-57 177
MS.gene005762.t1 MTR_1g077390 52.903 155 73 0 1 155 1 155 3.05e-55 171
MS.gene005762.t1 MTR_1g084950 56.129 155 68 0 1 155 1 155 7.17e-52 162
MS.gene005762.t1 MTR_1g077320 52.903 155 73 0 1 155 1 155 1.91e-49 156
MS.gene005762.t1 MTR_4g028720 52.258 155 74 0 1 155 1 155 4.95e-48 153
MS.gene005762.t1 MTR_7g011950 50.968 155 76 0 1 155 1 155 6.09e-47 150
MS.gene005762.t1 MTR_1g077300 50.968 155 74 1 1 155 1 153 1.13e-42 139
MS.gene005762.t1 MTR_5g047560 45.806 155 68 1 1 155 1 139 2.13e-40 133
MS.gene005762.t1 MTR_3g466890 42.581 155 88 1 3 156 2 156 1.10e-36 124
MS.gene005762.t1 MTR_3g466830 40.645 155 91 1 3 156 2 156 6.95e-36 122
MS.gene005762.t1 MTR_3g065100 41.667 156 90 1 1 155 1 156 1.04e-34 121
MS.gene005762.t1 MTR_4g032620 35.443 158 100 2 1 156 1 158 1.62e-34 120
MS.gene005762.t1 MTR_4g031910 42.405 158 89 2 1 156 1 158 3.06e-34 120
MS.gene005762.t1 MTR_3g466980 35.714 154 98 1 1 153 1 154 1.96e-33 117
MS.gene005762.t1 MTR_5g075380 38.854 157 95 1 1 156 1 157 1.58e-32 113
MS.gene005762.t1 MTR_8g036130 34.375 160 101 2 1 156 1 160 8.29e-31 111
MS.gene005762.t1 MTR_4g032260 40.385 156 91 2 1 154 1 156 1.16e-27 101
MS.gene005762.t1 MTR_2g016210 35.256 156 99 2 1 154 1 156 1.79e-27 102
MS.gene005762.t1 MTR_4g063790 36.943 157 91 3 1 152 1 154 2.57e-27 100
MS.gene005762.t1 MTR_2g035610 40.496 121 71 1 1 120 1 121 1.70e-25 94.4
MS.gene005762.t1 MTR_4g032290 40.506 158 92 2 1 156 1 158 2.41e-25 97.1
MS.gene005762.t1 MTR_3g031240 33.962 159 101 3 1 156 1 158 3.41e-25 95.5
MS.gene005762.t1 MTR_3g031100 33.544 158 101 3 1 155 1 157 4.29e-25 96.7
MS.gene005762.t1 MTR_3g467080 32.075 159 102 3 1 155 1 157 7.66e-24 91.3
MS.gene005762.t1 MTR_3g466900 38.095 126 77 1 32 156 2 127 2.42e-23 89.4
MS.gene005762.t1 MTR_4g028800 50.685 73 34 1 1 73 1 71 5.45e-23 86.7
MS.gene005762.t1 MTR_3g466930 36.508 126 79 1 32 156 2 127 1.17e-22 87.4
MS.gene005762.t1 MTR_2g035580 34.737 95 61 1 1 94 1 95 3.62e-19 79.3
MS.gene005762.t1 MTR_4g019670 35.185 108 69 1 3 109 6 113 1.37e-18 81.6
MS.gene005762.t1 MTR_7g106510 33.333 108 71 1 3 109 6 113 1.83e-17 78.6
MS.gene005762.t1 MTR_7g055800 28.814 118 57 2 1 118 1 91 5.18e-15 66.6
MS.gene005762.t1 MTR_3g093900 26.452 155 113 1 3 156 6 160 8.22e-15 70.9
MS.gene005762.t1 MTR_3g465410 31.250 128 82 3 29 152 1 126 1.80e-14 66.6
MS.gene005762.t1 MTR_1g033930 40.426 94 55 1 64 156 22 115 3.27e-14 65.5
MS.gene005762.t1 MTR_6g005450 29.518 166 98 6 1 157 1 156 1.61e-13 67.0
MS.gene005762.t1 MTR_6g018920 25.904 166 104 5 1 157 1 156 4.52e-13 65.9
MS.gene005762.t1 MTR_7g075850 30.263 152 95 4 1 151 1 142 2.10e-12 63.2
MS.gene005762.t1 MTR_1g114730 27.439 164 100 5 1 155 1 154 1.63e-11 61.2
MS.gene005762.t1 MTR_7g055940 31.373 102 43 3 1 102 1 75 1.96e-11 57.0
MS.gene005762.t1 MTR_7g055790 30.631 111 58 2 1 110 59 151 3.87e-11 58.2
MS.gene005762.t1 MTR_3g113030 27.778 162 96 4 1 154 1 149 5.78e-11 58.9
MS.gene005762.t1 MTR_1g033370 32.990 97 64 1 61 156 25 121 7.05e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene005762.t1 AT5G48670 42.308 156 89 1 1 155 1 156 3.15e-31 114
MS.gene005762.t1 AT1G65300 37.013 154 96 1 3 155 2 155 1.17e-30 112
MS.gene005762.t1 AT3G05860 38.926 149 90 1 1 148 1 149 2.13e-30 109
MS.gene005762.t1 AT5G26630 39.744 156 93 1 1 155 1 156 2.56e-30 109
MS.gene005762.t1 AT3G05860 38.926 149 90 1 1 148 1 149 8.96e-30 108
MS.gene005762.t1 AT3G05860 38.926 149 90 1 1 148 1 149 1.26e-29 108
MS.gene005762.t1 AT1G65330 37.662 154 95 1 3 155 2 155 3.93e-28 105
MS.gene005762.t1 AT1G31640 35.333 150 95 2 3 151 2 150 7.04e-26 102
MS.gene005762.t1 AT1G22590 34.177 158 100 2 1 157 1 155 2.96e-25 95.1
MS.gene005762.t1 AT5G26650 34.641 153 99 1 4 155 2 154 6.76e-25 98.6
MS.gene005762.t1 AT5G27960 34.641 153 99 1 4 155 2 154 2.45e-24 96.3
MS.gene005762.t1 AT2G28700 40.000 110 65 1 1 109 1 110 6.15e-24 95.5
MS.gene005762.t1 AT5G06500 36.076 158 93 2 1 154 1 154 2.12e-22 89.7
MS.gene005762.t1 AT1G31630 29.801 151 104 2 3 152 2 151 4.38e-21 87.8
MS.gene005762.t1 AT5G27810 37.500 96 59 1 29 123 1 96 7.38e-19 77.4
MS.gene005762.t1 AT5G26580 30.128 156 94 3 1 155 1 142 8.35e-16 73.6
MS.gene005762.t1 AT2G40210 46.667 75 40 0 1 75 1 75 1.62e-14 70.1
MS.gene005762.t1 AT2G22630 50.000 52 26 0 1 52 1 52 2.53e-11 60.1
MS.gene005762.t1 AT2G22630 50.000 52 26 0 1 52 1 52 2.53e-11 60.1
MS.gene005762.t1 AT1G47760 30.973 113 67 3 1 110 1 105 4.67e-11 58.5

Find 35 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAACCTCTCAATTATCTTAT+TGG 0.120149 1.2:-67942699 None:intergenic
ATTATCTTATTGGCTCCTTC+TGG 0.257805 1.2:-67942689 None:intergenic
GATGTGGCCACACCTCTGTC+TGG 0.327640 1.2:-67942667 None:intergenic
TGCCTTCCTTGCTGCGTCAT+CGG 0.331092 1.2:-67942543 None:intergenic
TGCTGCGTCATCGGGAATAA+AGG 0.359895 1.2:-67942534 None:intergenic
GCCTTCCTTGCTGCGTCATC+GGG 0.360745 1.2:-67942542 None:intergenic
TCTGCATGATAAACCTTTCA+TGG 0.377114 1.2:-67942760 None:intergenic
TTCACCTTTCTTCTCGCCAT+TGG 0.379933 1.2:-67942506 None:intergenic
GAGAAGATTGATACACTTGA+TGG 0.449535 1.2:+67942956 MS.gene005762:CDS
TTATTGGCTCCTTCTGGATG+TGG 0.451748 1.2:-67942683 None:intergenic
ACTGAAGAAGTGAAGGATCT+TGG 0.461931 1.2:+67942899 MS.gene005762:CDS
ACCTCTGTCTGGGAATCAAA+TGG 0.463167 1.2:-67942656 None:intergenic
TCAAAGCAAGGGACAAACTA+AGG 0.480536 1.2:+67942789 MS.gene005762:CDS
AAGCTACAATAAAAGAAAGA+AGG 0.492405 1.2:+67942565 MS.gene005762:CDS
AGCTGGAACATCACAAAGAA+TGG 0.506592 1.2:-67942615 None:intergenic
GCAACCAATGGCGAGAAGAA+AGG 0.507401 1.2:+67942502 None:intergenic
ATGTGGCCACACCTCTGTCT+GGG 0.518550 1.2:-67942666 None:intergenic
ATGAGAATCGTGAGCAAGAG+TGG 0.520504 1.2:+67942822 MS.gene005762:CDS
CTGAAAATTATAGCACAAGC+TGG 0.522219 1.2:-67942632 None:intergenic
TCCCGATGACGCAGCAAGGA+AGG 0.534188 1.2:+67942541 MS.gene005762:CDS
GCGTGCTGAGAAGAAGTTGA+AGG 0.552409 1.2:+67942925 MS.gene005762:CDS
AAAGAAGGGTCTCATAAAGA+AGG 0.555375 1.2:+67942580 MS.gene005762:CDS
TGCAGACGATTGTCAAAGCA+AGG 0.562423 1.2:+67942777 MS.gene005762:CDS
AGCTACAATAAAAGAAAGAA+GGG 0.567899 1.2:+67942566 MS.gene005762:CDS
CTAGAAATGTGAGCCATGAA+AGG 0.580946 1.2:+67942747 MS.gene005762:CDS
ACTGACTACTGAAGAAGTGA+AGG 0.595360 1.2:+67942892 MS.gene005762:CDS
TCCATTTGATTCCCAGACAG+AGG 0.627731 1.2:+67942655 MS.gene005762:CDS
TGAGAATCGTGAGCAAGAGT+GGG 0.628956 1.2:+67942823 MS.gene005762:CDS
GAGGTTTCAAAGTTTAGCTG+TGG 0.630642 1.2:+67942715 MS.gene005762:CDS
TTATTCCCGATGACGCAGCA+AGG 0.647670 1.2:+67942537 MS.gene005762:CDS
GAGGTGTGGCCACATCCAGA+AGG 0.649175 1.2:+67942674 MS.gene005762:CDS
GAGCCAATAAGATAATTGAG+AGG 0.656204 1.2:+67942696 MS.gene005762:CDS
TTGATTCCCAGACAGAGGTG+TGG 0.667220 1.2:+67942660 MS.gene005762:CDS
GCAGACGATTGTCAAAGCAA+GGG 0.675137 1.2:+67942778 MS.gene005762:CDS
TGCTGAGAAGAAGTTGAAGG+AGG 0.675328 1.2:+67942928 MS.gene005762:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAACCTCTCAATTATCTTAT+TGG - chr1.2:67942702-67942721 None:intergenic 25.0%
! AAGCTACAATAAAAGAAAGA+AGG + chr1.2:67942565-67942584 MS.gene005762:CDS 25.0%
! AGCTACAATAAAAGAAAGAA+GGG + chr1.2:67942566-67942585 MS.gene005762:CDS 25.0%
AAAGAAGGGTCTCATAAAGA+AGG + chr1.2:67942580-67942599 MS.gene005762:CDS 35.0%
CTGAAAATTATAGCACAAGC+TGG - chr1.2:67942635-67942654 None:intergenic 35.0%
GAGAAGATTGATACACTTGA+TGG + chr1.2:67942956-67942975 MS.gene005762:CDS 35.0%
GAGCCAATAAGATAATTGAG+AGG + chr1.2:67942696-67942715 MS.gene005762:CDS 35.0%
TCTGCATGATAAACCTTTCA+TGG - chr1.2:67942763-67942782 None:intergenic 35.0%
!! ATTATCTTATTGGCTCCTTC+TGG - chr1.2:67942692-67942711 None:intergenic 35.0%
ACTGAAGAAGTGAAGGATCT+TGG + chr1.2:67942899-67942918 MS.gene005762:CDS 40.0%
ACTGACTACTGAAGAAGTGA+AGG + chr1.2:67942892-67942911 MS.gene005762:CDS 40.0%
AGCTGGAACATCACAAAGAA+TGG - chr1.2:67942618-67942637 None:intergenic 40.0%
CTAGAAATGTGAGCCATGAA+AGG + chr1.2:67942747-67942766 MS.gene005762:CDS 40.0%
GAGGTTTCAAAGTTTAGCTG+TGG + chr1.2:67942715-67942734 MS.gene005762:CDS 40.0%
TCAAAGCAAGGGACAAACTA+AGG + chr1.2:67942789-67942808 MS.gene005762:CDS 40.0%
!!! AGTGGGATCTTTTTTTGCTC+AGG + chr1.2:67942840-67942859 MS.gene005762:CDS 40.0%
ACCTCTGTCTGGGAATCAAA+TGG - chr1.2:67942659-67942678 None:intergenic 45.0%
ATGAGAATCGTGAGCAAGAG+TGG + chr1.2:67942822-67942841 MS.gene005762:CDS 45.0%
GCAGACGATTGTCAAAGCAA+GGG + chr1.2:67942778-67942797 MS.gene005762:CDS 45.0%
TCCATTTGATTCCCAGACAG+AGG + chr1.2:67942655-67942674 MS.gene005762:CDS 45.0%
TGAGAATCGTGAGCAAGAGT+GGG + chr1.2:67942823-67942842 MS.gene005762:CDS 45.0%
TGCAGACGATTGTCAAAGCA+AGG + chr1.2:67942777-67942796 MS.gene005762:CDS 45.0%
TGCTGAGAAGAAGTTGAAGG+AGG + chr1.2:67942928-67942947 MS.gene005762:CDS 45.0%
!! TTATTGGCTCCTTCTGGATG+TGG - chr1.2:67942686-67942705 None:intergenic 45.0%
GCGTGCTGAGAAGAAGTTGA+AGG + chr1.2:67942925-67942944 MS.gene005762:CDS 50.0%
TGCTGCGTCATCGGGAATAA+AGG - chr1.2:67942537-67942556 None:intergenic 50.0%
TTATTCCCGATGACGCAGCA+AGG + chr1.2:67942537-67942556 MS.gene005762:CDS 50.0%
TTGATTCCCAGACAGAGGTG+TGG + chr1.2:67942660-67942679 MS.gene005762:CDS 50.0%
ATGTGGCCACACCTCTGTCT+GGG - chr1.2:67942669-67942688 None:intergenic 55.0%
TGCCTTCCTTGCTGCGTCAT+CGG - chr1.2:67942546-67942565 None:intergenic 55.0%
GAGGTGTGGCCACATCCAGA+AGG + chr1.2:67942674-67942693 MS.gene005762:CDS 60.0%
GATGTGGCCACACCTCTGTC+TGG - chr1.2:67942670-67942689 None:intergenic 60.0%
GCCTTCCTTGCTGCGTCATC+GGG - chr1.2:67942545-67942564 None:intergenic 60.0%
TCCCGATGACGCAGCAAGGA+AGG + chr1.2:67942541-67942560 MS.gene005762:CDS 60.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 67942509 67942982 67942509 ID=MS.gene005762
chr1.2 mRNA 67942509 67942982 67942509 ID=MS.gene005762.t1;Parent=MS.gene005762
chr1.2 exon 67942509 67942982 67942509 ID=MS.gene005762.t1.exon1;Parent=MS.gene005762.t1
chr1.2 CDS 67942509 67942982 67942509 ID=cds.MS.gene005762.t1;Parent=MS.gene005762.t1
Gene Sequence

>MS.gene005762

ATGGCGAGAAGAAAGGTGAAACTCGCCTTTATTCCCGATGACGCAGCAAGGAAGGCAAGCTACAATAAAAGAAAGAAGGGTCTCATAAAGAAGGTAAGTGAACTCACCATTCTTTGTGATGTTCCAGCTTGTGCTATAATTTTCAGTCCATTTGATTCCCAGACAGAGGTGTGGCCACATCCAGAAGGAGCCAATAAGATAATTGAGAGGTTTCAAAGTTTAGCTGTGGTAGATGAAACTAGAAATGTGAGCCATGAAAGGTTTATCATGCAGACGATTGTCAAAGCAAGGGACAAACTAAGGAAGTTGAAATATGAGAATCGTGAGCAAGAGTGGGATCTTTTTTTGCTCAGGAACTTGAAAAACAACAATGTGCTTGATGAACTGACTACTGAAGAAGTGAAGGATCTTGGTAAGCGTGCTGAGAAGAAGTTGAAGGAGGTTAATGAGAAGATTGATACACTTGATGGATGA
Protein sequence

>MS.gene005762.t1

MARRKVKLAFIPDDAARKASYNKRKKGLIKKVSELTILCDVPACAIIFSPFDSQTEVWPHPEGANKIIERFQSLAVVDETRNVSHERFIMQTIVKARDKLRKLKYENREQEWDLFLLRNLKNNNVLDELTTEEVKDLGKRAEKKLKEVNEKIDTLDG