AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene78227


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78227.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78227.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78227.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78227.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78227.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78227.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78227.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78227.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78227.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78227.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78227.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene78227.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene78227.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene78227.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene78227.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene78227.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene78227.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene78227.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene78227.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene78227.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene78227.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene78227.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene78227.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene78227.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene78227.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene78227.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene78227.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene78227.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene78227.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene78227.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene78227.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene78227.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene78227.t1 MTR_4g128040 75.676 37 9 0 79 115 20 56 3.38e-15 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78227.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78227.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78227.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78227.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78227.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78227.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78227.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78227.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78227.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78227.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78227.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78227.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78227.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene78227.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene78227.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene78227.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene78227.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene78227.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene78227.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene78227.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene78227.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene78227.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 33 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTCACTCCTCCGGTTGC+CGG 0.280449 7.4:+44399610 None:intergenic
AGCTGATTTCCGTGCGGCTT+TGG 0.327301 7.4:+44399633 None:intergenic
TCACGAAGCGCAACGGTTCC+AGG 0.347602 7.4:+44399571 None:intergenic
GCTGCTGAAGCTTATCTTGT+TGG 0.357332 7.4:-44399415 MS.gene78227:CDS
CGGAAATCAGCTCCGGCAAC+CGG 0.402491 7.4:-44399622 MS.gene78227:CDS
CTTGCAAGTTGAATATCCTT+AGG 0.413826 7.4:+44399337 None:intergenic
GGATTTGCGTGCTGTTTGTT+TGG 0.426439 7.4:+44399690 None:intergenic
CAAGAAGAATTCGCGGTGAA+AGG 0.426749 7.4:-44399318 MS.gene78227:CDS
TGATTTCCGTGCGGCTTTGG+TGG 0.441149 7.4:+44399636 None:intergenic
GTGTGGCTTCTTCACTCCTC+CGG 0.476149 7.4:+44399603 None:intergenic
TGGTGGCGAGTTGTTTGCGT+GGG 0.485319 7.4:+44399653 None:intergenic
AAGCCACACCGTTTCCGTCC+TGG 0.490087 7.4:-44399589 MS.gene78227:CDS
AGCCGCACGGAAATCAGCTC+CGG 0.490847 7.4:-44399629 MS.gene78227:CDS
AAGAAGAATTCGCGGTGAAA+GGG 0.496217 7.4:-44399317 MS.gene78227:CDS
CAACGGTTCCAGGACGGAAA+CGG 0.513929 7.4:+44399581 None:intergenic
GAGAGTTACTATTATGCCTA+AGG 0.517685 7.4:-44399353 MS.gene78227:CDS
CAACTTGCAAGAAGAATTCG+CGG 0.524653 7.4:-44399325 MS.gene78227:CDS
AGAGCACTGAGCTTCTGATA+AGG 0.532730 7.4:-44399531 MS.gene78227:CDS
TCTTGTTCGTGAAATCGCTC+AGG 0.549771 7.4:-44399491 MS.gene78227:CDS
CAAACAGCACGCAAATCCAC+CGG 0.551449 7.4:-44399685 MS.gene78227:CDS
CAGTGCTCTTCTGATACTTG+CGG 0.560252 7.4:+44399545 None:intergenic
TTGGTGGCGAGTTGTTTGCG+TGG 0.598004 7.4:+44399652 None:intergenic
TCACGAACAAGACGTTGGAA+TGG 0.598115 7.4:+44399502 None:intergenic
ACTGCTCTGAAATCTGAGAT+CGG 0.610183 7.4:+44399459 None:intergenic
CGATTTCACGAACAAGACGT+TGG 0.613448 7.4:+44399497 None:intergenic
GCGGATTTCACGAAGCGCAA+CGG 0.618017 7.4:+44399564 None:intergenic
AAATCAGCTCCGGCAACCGG+AGG 0.629304 7.4:-44399619 MS.gene78227:CDS
AACTCGCCACCAAAGCCGCA+CGG 0.635817 7.4:-44399642 MS.gene78227:CDS
GAAGCGCAACGGTTCCAGGA+CGG 0.664033 7.4:+44399575 None:intergenic
ACAGCACGCAAATCCACCGG+AGG 0.682127 7.4:-44399682 MS.gene78227:CDS
GTTCCAGGACGGAAACGGTG+TGG 0.688993 7.4:+44399586 None:intergenic
GGTGGCGAGTTGTTTGCGTG+GGG 0.692652 7.4:+44399654 None:intergenic
TGCCGGAGCTGATTTCCGTG+CGG 0.737969 7.4:+44399627 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GAGAGTTACTATTATGCCTA+AGG - chr7.4:44399659-44399678 MS.gene78227:CDS 35.0%
! CTTGCAAGTTGAATATCCTT+AGG + chr7.4:44399678-44399697 None:intergenic 35.0%
AAGAAGAATTCGCGGTGAAA+GGG - chr7.4:44399695-44399714 MS.gene78227:CDS 40.0%
CAACTTGCAAGAAGAATTCG+CGG - chr7.4:44399687-44399706 MS.gene78227:CDS 40.0%
!! ACTGCTCTGAAATCTGAGAT+CGG + chr7.4:44399556-44399575 None:intergenic 40.0%
CAAGAAGAATTCGCGGTGAA+AGG - chr7.4:44399694-44399713 MS.gene78227:CDS 45.0%
CAGTGCTCTTCTGATACTTG+CGG + chr7.4:44399470-44399489 None:intergenic 45.0%
CGATTTCACGAACAAGACGT+TGG + chr7.4:44399518-44399537 None:intergenic 45.0%
GCTGCTGAAGCTTATCTTGT+TGG - chr7.4:44399597-44399616 MS.gene78227:CDS 45.0%
TCACGAACAAGACGTTGGAA+TGG + chr7.4:44399513-44399532 None:intergenic 45.0%
TCTTGTTCGTGAAATCGCTC+AGG - chr7.4:44399521-44399540 MS.gene78227:CDS 45.0%
!! AGAGCACTGAGCTTCTGATA+AGG - chr7.4:44399481-44399500 MS.gene78227:CDS 45.0%
!! GGATTTGCGTGCTGTTTGTT+TGG + chr7.4:44399325-44399344 None:intergenic 45.0%
CAAACAGCACGCAAATCCAC+CGG - chr7.4:44399327-44399346 MS.gene78227:CDS 50.0%
CAACGGTTCCAGGACGGAAA+CGG + chr7.4:44399434-44399453 None:intergenic 55.0%
GCGGATTTCACGAAGCGCAA+CGG + chr7.4:44399451-44399470 None:intergenic 55.0%
GTGTGGCTTCTTCACTCCTC+CGG + chr7.4:44399412-44399431 None:intergenic 55.0%
TTCTTCACTCCTCCGGTTGC+CGG + chr7.4:44399405-44399424 None:intergenic 55.0%
! AGCTGATTTCCGTGCGGCTT+TGG + chr7.4:44399382-44399401 None:intergenic 55.0%
! TGATTTCCGTGCGGCTTTGG+TGG + chr7.4:44399379-44399398 None:intergenic 55.0%
! TGGTGGCGAGTTGTTTGCGT+GGG + chr7.4:44399362-44399381 None:intergenic 55.0%
! TTTGCGTGGGGCTTTTCCTC+CGG + chr7.4:44399349-44399368 None:intergenic 55.0%
!! TTGGTGGCGAGTTGTTTGCG+TGG + chr7.4:44399363-44399382 None:intergenic 55.0%
AAATCAGCTCCGGCAACCGG+AGG - chr7.4:44399393-44399412 MS.gene78227:CDS 60.0%
AACTCGCCACCAAAGCCGCA+CGG - chr7.4:44399370-44399389 MS.gene78227:CDS 60.0%
AAGCCACACCGTTTCCGTCC+TGG - chr7.4:44399423-44399442 MS.gene78227:CDS 60.0%
ACAGCACGCAAATCCACCGG+AGG - chr7.4:44399330-44399349 MS.gene78227:CDS 60.0%
AGCCGCACGGAAATCAGCTC+CGG - chr7.4:44399383-44399402 MS.gene78227:CDS 60.0%
CGGAAATCAGCTCCGGCAAC+CGG - chr7.4:44399390-44399409 MS.gene78227:CDS 60.0%
GAAGCGCAACGGTTCCAGGA+CGG + chr7.4:44399440-44399459 None:intergenic 60.0%
GGTGGCGAGTTGTTTGCGTG+GGG + chr7.4:44399361-44399380 None:intergenic 60.0%
GTTCCAGGACGGAAACGGTG+TGG + chr7.4:44399429-44399448 None:intergenic 60.0%
TCACGAAGCGCAACGGTTCC+AGG + chr7.4:44399444-44399463 None:intergenic 60.0%
! TGCCGGAGCTGATTTCCGTG+CGG + chr7.4:44399388-44399407 None:intergenic 60.0%
! GCGTGGGGCTTTTCCTCCGG+TGG + chr7.4:44399346-44399365 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 44399312 44399722 44399312 ID=MS.gene78227
chr7.4 mRNA 44399312 44399722 44399312 ID=MS.gene78227.t1;Parent=MS.gene78227
chr7.4 exon 44399312 44399722 44399312 ID=MS.gene78227.t1.exon1;Parent=MS.gene78227.t1
chr7.4 CDS 44399312 44399722 44399312 ID=cds.MS.gene78227.t1;Parent=MS.gene78227.t1
Gene Sequence

>MS.gene78227

ATGGCACGAACCAAACAAACAGCACGCAAATCCACCGGAGGAAAAGCCCCACGCAAACAACTCGCCACCAAAGCCGCACGGAAATCAGCTCCGGCAACCGGAGGAGTGAAGAAGCCACACCGTTTCCGTCCTGGAACCGTTGCGCTTCGTGAAATCCGCAAGTATCAGAAGAGCACTGAGCTTCTGATAAGGAAACTTCCATTCCAACGTCTTGTTCGTGAAATCGCTCAGGATTTCAAAACCGATCTCAGATTTCAGAGCAGTGCTGTTTCTGCTCTTCAAGAAGCTGCTGAAGCTTATCTTGTTGGTTTGTTTGAAGATACGAATCTTTGCGCTATTCATGCTAAGAGAGTTACTATTATGCCTAAGGATATTCAACTTGCAAGAAGAATTCGCGGTGAAAGGGCCTAG

Protein sequence

>MS.gene78227.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA