AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene81327

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81327.t1 MTR_5g095740 93.158 190 2 3 1 185 1 184 4.76e-122 342
MS.gene81327.t1 MTR_3g058980 70.707 198 37 5 1 185 1 190 2.69e-83 244
MS.gene81327.t1 MTR_2g026710 83.051 118 14 1 1 118 1 112 2.93e-67 203
MS.gene81327.t1 MTR_8g091720 74.074 135 31 2 10 140 13 147 3.45e-65 199
MS.gene81327.t1 MTR_1g072790 68.182 132 36 1 1 126 1 132 8.85e-62 189
MS.gene81327.t1 MTR_7g061270 81.731 104 19 0 22 125 25 128 7.75e-61 187
MS.gene81327.t1 MTR_7g100650 81.731 104 19 0 22 125 25 128 1.04e-60 186
MS.gene81327.t1 MTR_8g093920 85.567 97 14 0 22 118 39 135 5.56e-59 184
MS.gene81327.t1 MTR_4g133938 74.167 120 27 2 1 120 1 116 7.40e-59 181
MS.gene81327.t1 MTR_4g133952 66.990 103 34 0 16 118 51 153 6.58e-50 161
MS.gene81327.t1 MTR_1g088860 71.875 96 27 0 22 117 35 130 1.07e-49 159
MS.gene81327.t1 MTR_4g119500 61.207 116 42 2 5 118 3 117 6.86e-48 152
MS.gene81327.t1 MTR_0392s0020 60.526 114 35 1 4 117 9 112 7.14e-48 153
MS.gene81327.t1 MTR_1g039040 61.818 110 42 0 22 131 5 114 5.05e-47 152
MS.gene81327.t1 MTR_1g083070 53.279 122 48 2 23 135 4 125 1.31e-39 131
MS.gene81327.t1 MTR_1g029070 48.246 114 52 1 3 116 39 145 1.51e-29 107
MS.gene81327.t1 MTR_5g095900 47.368 95 47 1 20 111 10 104 2.34e-22 89.0
MS.gene81327.t1 MTR_1g029100 43.421 76 43 0 28 103 7 82 3.99e-19 78.2
MS.gene81327.t1 MTR_1g028480 45.349 86 43 1 53 134 19 104 4.99e-19 78.6
MS.gene81327.t1 MTR_2g056000 34.118 85 56 0 19 103 37 121 1.03e-15 71.6
MS.gene81327.t1 MTR_4g112380 36.250 80 51 0 24 103 12 91 1.22e-15 70.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81327.t1 AT4G14540 86.777 121 14 1 1 121 1 119 2.21e-74 221
MS.gene81327.t1 AT5G47640 88.889 108 12 0 19 126 23 130 1.40e-67 204
MS.gene81327.t1 AT2G38880 70.732 123 36 0 4 126 2 124 2.75e-60 184
MS.gene81327.t1 AT2G38880 70.732 123 36 0 4 126 2 124 3.35e-60 184
MS.gene81327.t1 AT2G38880 70.732 123 36 0 4 126 2 124 3.35e-60 184
MS.gene81327.t1 AT2G38880 70.732 123 36 0 4 126 2 124 3.35e-60 184
MS.gene81327.t1 AT3G53340 59.494 158 54 3 19 174 25 174 2.23e-59 183
MS.gene81327.t1 AT3G53340 59.494 158 54 3 19 174 25 174 2.23e-59 183
MS.gene81327.t1 AT2G37060 68.992 129 38 1 7 135 16 142 4.85e-59 182
MS.gene81327.t1 AT2G37060 68.992 129 38 1 7 135 16 142 4.85e-59 182
MS.gene81327.t1 AT2G37060 68.992 129 38 1 7 135 16 142 4.85e-59 182
MS.gene81327.t1 AT2G38880 75.455 110 27 0 4 113 2 111 1.75e-57 176
MS.gene81327.t1 AT2G38880 69.919 123 35 1 4 126 2 122 3.39e-57 176
MS.gene81327.t1 AT2G38880 75.455 110 27 0 4 113 2 111 7.36e-57 176
MS.gene81327.t1 AT2G38880 75.455 110 27 0 4 113 2 111 7.36e-57 176
MS.gene81327.t1 AT2G38880 75.455 110 27 0 4 113 2 111 8.39e-57 176
MS.gene81327.t1 AT2G38880 75.455 110 27 0 4 113 2 111 8.39e-57 176
MS.gene81327.t1 AT2G38880 75.455 110 27 0 4 113 2 111 8.39e-57 176
MS.gene81327.t1 AT3G53340 80.000 95 19 0 19 113 25 119 1.54e-56 174
MS.gene81327.t1 AT3G53340 80.208 96 19 0 19 114 25 120 3.33e-56 174
MS.gene81327.t1 AT3G53340 80.208 96 19 0 19 114 25 120 3.33e-56 174
MS.gene81327.t1 AT2G13570 78.218 101 22 0 22 122 35 135 4.77e-56 176
MS.gene81327.t1 AT5G47670 50.610 164 75 2 6 164 12 174 5.02e-55 173
MS.gene81327.t1 AT5G47670 50.610 164 75 2 6 164 41 203 1.14e-54 173
MS.gene81327.t1 AT5G47670 50.610 164 75 2 6 164 41 203 1.14e-54 173
MS.gene81327.t1 AT2G47810 72.917 96 26 0 22 117 50 145 1.05e-49 158
MS.gene81327.t1 AT1G21970 63.366 101 37 0 22 122 58 158 9.81e-47 153
MS.gene81327.t1 AT1G09030 60.417 96 38 0 23 118 3 98 9.83e-42 137
MS.gene81327.t1 AT5G08190 38.272 81 50 0 23 103 11 91 7.36e-17 74.3
MS.gene81327.t1 AT5G08190 38.272 81 50 0 23 103 11 91 8.00e-17 74.3
MS.gene81327.t1 AT5G23090 37.179 78 49 0 24 101 12 89 2.24e-16 72.8
MS.gene81327.t1 AT5G23090 37.179 78 49 0 24 101 12 89 2.24e-16 72.8
MS.gene81327.t1 AT5G23090 37.179 78 49 0 24 101 12 89 2.24e-16 72.8
MS.gene81327.t1 AT5G23090 37.179 78 49 0 24 101 12 89 2.27e-16 72.8
MS.gene81327.t1 AT5G23090 35.938 64 41 0 40 103 15 78 5.04e-12 61.2

Find 46 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTGAGCAGAATAATGAAAA+AGG 0.338551 5.2:+80485818 MS.gene81327:CDS
TTTCTCTCTCTGACACTTAT+CGG 0.341007 5.2:-80485934 None:intergenic
ATTCTGCTCACGTTTGCTAT+TGG 0.361435 5.2:-80485807 None:intergenic
CGGTGATAACTCGCTGTTCC+CGG 0.363693 5.2:-80485763 None:intergenic
CAGGGACACGTGTACGGTTC+TGG 0.366578 5.2:+80486200 MS.gene81327:CDS
AACTCGCTGTTCCCGGCGTT+CGG 0.373131 5.2:-80485756 None:intergenic
GGCTGATTCCGACAATGAAT+CGG 0.393443 5.2:+80485725 MS.gene81327:CDS
TCAGCATCAGCATCAGCATC+AGG 0.402922 5.2:+80486181 MS.gene81327:CDS
TCAACGGCGACGATCTACTT+TGG 0.416392 5.2:+80485967 MS.gene81327:CDS
TCTACCAGCATTAGGATAAC+CGG 0.419702 5.2:-80486249 None:intergenic
CGGGAGGAGCACCGAACGCC+GGG 0.420650 5.2:+80485745 MS.gene81327:CDS
CGTTGAAGATAAATCTTCAA+TGG 0.432633 5.2:-80486026 None:intergenic
CATCAAGTGCCTGGTGGGCC+CGG 0.439513 5.2:+80486230 MS.gene81327:CDS
TTTGAGATCTTCGCGTTCGC+CGG 0.442163 5.2:-80485846 None:intergenic
ATCTTTATCACGTGCAGCAA+CGG 0.448624 5.2:-80486075 None:intergenic
AGACGCGAAGGAAACAGTTC+AGG 0.460774 5.2:+80485869 MS.gene81327:CDS
CAACGGCGACGATCTACTTT+GGG 0.462526 5.2:+80485968 MS.gene81327:CDS
CTTTGGGCGATGACTACGTT+AGG 0.467469 5.2:+80485984 MS.gene81327:CDS
TACCTGGGTCTACCAGCATT+AGG 0.480387 5.2:-80486257 None:intergenic
TGCTCCTCCCGATTCATTGT+CGG 0.482065 5.2:-80485733 None:intergenic
CGTTTGCTATTGGTAAGAAT+CGG 0.499147 5.2:-80485797 None:intergenic
GCTGATTCCGACAATGAATC+GGG 0.501404 5.2:+80485726 MS.gene81327:CDS
TCCATCTTCTTCTTCGTCGT+CGG 0.501529 5.2:+80486106 MS.gene81327:CDS
ACACTTATCGGAAGCTTCGC+CGG 0.521889 5.2:-80485922 None:intergenic
TTGTCCACACCATATCTACC+TGG 0.526344 5.2:-80486273 None:intergenic
TATGGTGCTCCTCCTCAAGT+TGG 0.535182 5.2:+80486137 MS.gene81327:CDS
TTAGGATAACCGGGCCCACC+AGG 0.536533 5.2:-80486239 None:intergenic
ACCGACGACGAAGAAGAAGA+TGG 0.555299 5.2:-80486107 None:intergenic
TCGGGAGGAGCACCGAACGC+CGG 0.558380 5.2:+80485744 MS.gene81327:CDS
CAGCATCAGGGACACGTGTA+CGG 0.574817 5.2:+80486194 MS.gene81327:CDS
AACAGTTCAGGAATGTGTAT+CGG 0.575632 5.2:+80485881 MS.gene81327:CDS
GAGAAACGAAAGACGATCAA+CGG 0.592030 5.2:+80485951 MS.gene81327:CDS
GGGCCCGGTTATCCTAATGC+TGG 0.595889 5.2:+80486245 MS.gene81327:CDS
GTTGCTGCACGTGATAAAGA+TGG 0.603918 5.2:+80486077 MS.gene81327:CDS
GAGTTCATCAGCTTCATCAC+CGG 0.608726 5.2:+80485903 MS.gene81327:CDS
TGCATGATCATTCCAACTTG+AGG 0.615795 5.2:-80486149 None:intergenic
CAGCATCAGCATCAGCATCA+GGG 0.615976 5.2:+80486182 MS.gene81327:CDS
ATCCTAATGCTGGTAGACCC+AGG 0.616615 5.2:+80486255 MS.gene81327:CDS
CTACCAGCATTAGGATAACC+GGG 0.621673 5.2:-80486248 None:intergenic
GGACACGTGTACGGTTCTGG+TGG 0.628725 5.2:+80486203 MS.gene81327:CDS
AAGAATCGGTCTTGTTCTCG+CGG 0.644860 5.2:-80485783 None:intergenic
CAACGATTCAGAGAGATCGA+AGG 0.645752 5.2:+80486044 MS.gene81327:CDS
GAAGATCTCAAAAGACGCGA+AGG 0.648527 5.2:+80485857 MS.gene81327:CDS
ATGATCATTCCAACTTGAGG+AGG 0.661433 5.2:-80486146 None:intergenic
TGTCCACACCATATCTACCT+GGG 0.663421 5.2:-80486272 None:intergenic
GATTCCGACAATGAATCGGG+AGG 0.690680 5.2:+80485729 MS.gene81327:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CGTTGAAGATAAATCTTCAA+TGG - chr5.2:80486029-80486048 None:intergenic 30.0%
!! AATAATGAAAAAGGCGTTAC+CGG + chr5.2:80485827-80485846 MS.gene81327:CDS 30.0%
AACAGTTCAGGAATGTGTAT+CGG + chr5.2:80485881-80485900 MS.gene81327:CDS 35.0%
CGTGAGCAGAATAATGAAAA+AGG + chr5.2:80485818-80485837 MS.gene81327:CDS 35.0%
TTTCTCTCTCTGACACTTAT+CGG - chr5.2:80485937-80485956 None:intergenic 35.0%
!! CGTTTGCTATTGGTAAGAAT+CGG - chr5.2:80485800-80485819 None:intergenic 35.0%
ATCTTTATCACGTGCAGCAA+CGG - chr5.2:80486078-80486097 None:intergenic 40.0%
ATGATCATTCCAACTTGAGG+AGG - chr5.2:80486149-80486168 None:intergenic 40.0%
GAGAAACGAAAGACGATCAA+CGG + chr5.2:80485951-80485970 MS.gene81327:CDS 40.0%
TCTACCAGCATTAGGATAAC+CGG - chr5.2:80486252-80486271 None:intergenic 40.0%
TGCATGATCATTCCAACTTG+AGG - chr5.2:80486152-80486171 None:intergenic 40.0%
!! ATTCTGCTCACGTTTGCTAT+TGG - chr5.2:80485810-80485829 None:intergenic 40.0%
!!! TCGTCGTCGGTTTTTGATTA+TGG + chr5.2:80486119-80486138 MS.gene81327:CDS 40.0%
CAACGATTCAGAGAGATCGA+AGG + chr5.2:80486044-80486063 MS.gene81327:CDS 45.0%
CTACCAGCATTAGGATAACC+GGG - chr5.2:80486251-80486270 None:intergenic 45.0%
GAAGATCTCAAAAGACGCGA+AGG + chr5.2:80485857-80485876 MS.gene81327:CDS 45.0%
GAGTTCATCAGCTTCATCAC+CGG + chr5.2:80485903-80485922 MS.gene81327:CDS 45.0%
GTTGCTGCACGTGATAAAGA+TGG + chr5.2:80486077-80486096 MS.gene81327:CDS 45.0%
TCCATCTTCTTCTTCGTCGT+CGG + chr5.2:80486106-80486125 MS.gene81327:CDS 45.0%
! GCTGATTCCGACAATGAATC+GGG + chr5.2:80485726-80485745 MS.gene81327:CDS 45.0%
! GGCTGATTCCGACAATGAAT+CGG + chr5.2:80485725-80485744 MS.gene81327:CDS 45.0%
! GTTTTCATCAAGTGCCTGGT+GGG + chr5.2:80486225-80486244 MS.gene81327:CDS 45.0%
!! AAGAATCGGTCTTGTTCTCG+CGG - chr5.2:80485786-80485805 None:intergenic 45.0%
ACACTTATCGGAAGCTTCGC+CGG - chr5.2:80485925-80485944 None:intergenic 50.0%
ACCGACGACGAAGAAGAAGA+TGG - chr5.2:80486110-80486129 None:intergenic 50.0%
AGACGCGAAGGAAACAGTTC+AGG + chr5.2:80485869-80485888 MS.gene81327:CDS 50.0%
ATCCTAATGCTGGTAGACCC+AGG + chr5.2:80486255-80486274 MS.gene81327:CDS 50.0%
CAACGGCGACGATCTACTTT+GGG + chr5.2:80485968-80485987 MS.gene81327:CDS 50.0%
CAGCATCAGCATCAGCATCA+GGG + chr5.2:80486176-80486195 MS.gene81327:CDS 50.0%
CTTTGGGCGATGACTACGTT+AGG + chr5.2:80485984-80486003 MS.gene81327:CDS 50.0%
GATTCCGACAATGAATCGGG+AGG + chr5.2:80485729-80485748 MS.gene81327:CDS 50.0%
TACCTGGGTCTACCAGCATT+AGG - chr5.2:80486260-80486279 None:intergenic 50.0%
TATGGTGCTCCTCCTCAAGT+TGG + chr5.2:80486137-80486156 MS.gene81327:CDS 50.0%
TCAACGGCGACGATCTACTT+TGG + chr5.2:80485967-80485986 MS.gene81327:CDS 50.0%
TCAGCATCAGCATCAGCATC+AGG + chr5.2:80486175-80486194 MS.gene81327:CDS 50.0%
TGCTCCTCCCGATTCATTGT+CGG - chr5.2:80485736-80485755 None:intergenic 50.0%
! GGTGGTTTTCATCAAGTGCC+TGG + chr5.2:80486221-80486240 MS.gene81327:CDS 50.0%
! GGTTTTCATCAAGTGCCTGG+TGG + chr5.2:80486224-80486243 MS.gene81327:CDS 50.0%
! TTTGAGATCTTCGCGTTCGC+CGG - chr5.2:80485849-80485868 None:intergenic 50.0%
CAGCATCAGGGACACGTGTA+CGG + chr5.2:80486194-80486213 MS.gene81327:CDS 55.0%
CGGTGATAACTCGCTGTTCC+CGG - chr5.2:80485766-80485785 None:intergenic 55.0%
AACTCGCTGTTCCCGGCGTT+CGG - chr5.2:80485759-80485778 None:intergenic 60.0%
CAGGGACACGTGTACGGTTC+TGG + chr5.2:80486200-80486219 MS.gene81327:CDS 60.0%
GGGCCCGGTTATCCTAATGC+TGG + chr5.2:80486245-80486264 MS.gene81327:CDS 60.0%
TTAGGATAACCGGGCCCACC+AGG - chr5.2:80486242-80486261 None:intergenic 60.0%
! GGACACGTGTACGGTTCTGG+TGG + chr5.2:80486203-80486222 MS.gene81327:CDS 60.0%
! CATCAAGTGCCTGGTGGGCC+CGG + chr5.2:80486230-80486249 MS.gene81327:CDS 65.0%
!! TCGGGAGGAGCACCGAACGC+CGG + chr5.2:80485744-80485763 MS.gene81327:CDS 70.0%
!! CGGGAGGAGCACCGAACGCC+GGG + chr5.2:80485745-80485764 MS.gene81327:CDS 75.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 80485723 80486280 80485723 ID=MS.gene81327
chr5.2 mRNA 80485723 80486280 80485723 ID=MS.gene81327.t1;Parent=MS.gene81327
chr5.2 exon 80485723 80486280 80485723 ID=MS.gene81327.t1.exon1;Parent=MS.gene81327.t1
chr5.2 CDS 80485723 80486280 80485723 ID=cds.MS.gene81327.t1;Parent=MS.gene81327.t1
Gene Sequence

>MS.gene81327

ATGGCTGATTCCGACAATGAATCGGGAGGAGCACCGAACGCCGGGAACAGCGAGTTATCACCGCGAGAACAAGACCGATTCTTACCAATAGCAAACGTGAGCAGAATAATGAAAAAGGCGTTACCGGCGAACGCGAAGATCTCAAAAGACGCGAAGGAAACAGTTCAGGAATGTGTATCGGAGTTCATCAGCTTCATCACCGGCGAAGCTTCCGATAAGTGTCAGAGAGAGAAACGAAAGACGATCAACGGCGACGATCTACTTTGGGCGATGACTACGTTAGGATTTGAAGAGTACGTTGAACCATTGAAGATTTATCTTCAACGATTCAGAGAGATCGAAGGTGAGAAAACCGTTGCTGCACGTGATAAAGATGGCGTTGCTCCATCTTCTTCTTCGTCGTCGGTTTTTGATTATGGTGCTCCTCCTCAAGTTGGAATGATCATGCATCATCAGCATCAGCATCAGCATCAGCATCAGGGACACGTGTACGGTTCTGGTGGTTTTCATCAAGTGCCTGGTGGGCCCGGTTATCCTAATGCTGGTAGACCCAGGTAG
Protein sequence

>MS.gene81327.t1

MADSDNESGGAPNAGNSELSPREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFITGEASDKCQREKRKTINGDDLLWAMTTLGFEEYVEPLKIYLQRFREIEGEKTVAARDKDGVAPSSSSSSVFDYGAPPQVGMIMHHQHQHQHQHQGHVYGSGGFHQVPGGPGYPNAGRPR