AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene28438


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene28438.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28438.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28438.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28438.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28438.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28438.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28438.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28438.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28438.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28438.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28438.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene28438.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene28438.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene28438.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene28438.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene28438.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene28438.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene28438.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene28438.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene28438.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene28438.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene28438.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene28438.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene28438.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene28438.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene28438.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene28438.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene28438.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene28438.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene28438.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene28438.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene28438.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene28438.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.gene28438.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28438.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28438.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28438.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28438.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28438.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28438.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28438.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28438.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28438.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28438.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28438.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28438.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene28438.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene28438.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene28438.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene28438.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene28438.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene28438.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene28438.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene28438.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene28438.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 36 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGGTGGCGAGCTGCTTCC+GGG 0.243048 4.4:-8668565 None:intergenic
CCTTGGTGGCGAGCTGCTTC+CGG 0.245379 4.4:-8668566 None:intergenic
TCTCTCAAAGCAACTGTTCC+AGG 0.333816 4.4:-8668645 None:intergenic
CAGTGCTGTATCTGCTCTTC+AGG 0.340320 4.4:+8668776 MS.gene28438:CDS
AGCTGATTTCCGAGCGGCCT+TGG 0.357073 4.4:-8668583 None:intergenic
GGAAGCTGCTGAGGCTTACT+TGG 0.361475 4.4:+8668797 MS.gene28438:CDS
TTCTTCACTCCTCCGGTCGC+CGG 0.442119 4.4:-8668606 None:intergenic
GCTGCTGAGGCTTACTTGGT+TGG 0.450601 4.4:+8668801 MS.gene28438:CDS
GACGTTGGAATGGAAGTTTA+CGG 0.458530 4.4:-8668704 None:intergenic
CGGAAATCAGCTCCGGCGAC+CGG 0.461897 4.4:+8668594 MS.gene28438:CDS
CTTGCAAGCTGAATGTCCTT+AGG 0.462646 4.4:-8668879 None:intergenic
CCACCGGCGGCAAGGCTCCC+CGG 0.480154 4.4:+8668547 MS.gene28438:CDS
TGATTTCCGAGCGGCCTTGG+TGG 0.486781 4.4:-8668580 None:intergenic
TCGCAAGTCCACCGGCGGCA+AGG 0.488583 4.4:+8668539 MS.gene28438:CDS
AGCTCGCCACCAAGGCCGCT+CGG 0.489496 4.4:+8668574 MS.gene28438:CDS
GGCCGCTCGGAAATCAGCTC+CGG 0.498921 4.4:+8668587 MS.gene28438:CDS
GTGTGGCTTCTTCACTCCTC+CGG 0.499925 4.4:-8668613 None:intergenic
CTTCCGGGGAGCCTTGCCGC+CGG 0.507682 4.4:-8668550 None:intergenic
TGCTCTTCAGGAAGCTGCTG+AGG 0.517538 4.4:+8668788 MS.gene28438:CDS
CCGGGGAGCCTTGCCGCCGG+TGG 0.548377 4.4:-8668547 None:intergenic
GGACTTGCGAGCAGTCTGCT+TGG 0.551577 4.4:-8668526 None:intergenic
CAGACTGCTCGCAAGTCCAC+CGG 0.562052 4.4:+8668531 MS.gene28438:CDS
GAGAGTTACAATCATGCCTA+AGG 0.570792 4.4:+8668863 MS.gene28438:CDS
TTGGTGGCGAGCTGCTTCCG+GGG 0.572322 4.4:-8668564 None:intergenic
AAGAAGAATCAGAGGAGAGA+GGG 0.573886 4.4:+8668899 MS.gene28438:CDS
TCACGAACAAGACGTTGGAA+TGG 0.591294 4.4:-8668714 None:intergenic
AAATCAGCTCCGGCGACCGG+AGG 0.599225 4.4:+8668597 MS.gene28438:CDS
CAAGAAGAATCAGAGGAGAG+AGG 0.603703 4.4:+8668898 MS.gene28438:CDS
CAATTTCACGAACAAGACGT+TGG 0.614742 4.4:-8668719 None:intergenic
CAGCTTGCAAGAAGAATCAG+AGG 0.621034 4.4:+8668891 MS.gene28438:CDS
AAGATTTCAAGACAGATCTG+AGG 0.632208 4.4:+8668745 MS.gene28438:CDS
CCGGAAGCAGCTCGCCACCA+AGG 0.635253 4.4:+8668566 MS.gene28438:CDS
ACTGCTCGCAAGTCCACCGG+CGG 0.647164 4.4:+8668534 MS.gene28438:CDS
AAGCCACACAGATTCAGACC+TGG 0.672238 4.4:+8668627 MS.gene28438:CDS
GTTCCAGGTCTGAATCTGTG+TGG 0.688220 4.4:-8668630 None:intergenic
CGCCGGAGCTGATTTCCGAG+CGG 0.728257 4.4:-8668589 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGATTTCAAGACAGATCTG+AGG + chr4.4:8668745-8668764 MS.gene28438:CDS 35.0%
AAGAAGAATCAGAGGAGAGA+GGG + chr4.4:8668899-8668918 MS.gene28438:CDS 40.0%
CAATTTCACGAACAAGACGT+TGG - chr4.4:8668722-8668741 None:intergenic 40.0%
GACGTTGGAATGGAAGTTTA+CGG - chr4.4:8668707-8668726 None:intergenic 40.0%
GAGAGTTACAATCATGCCTA+AGG + chr4.4:8668863-8668882 MS.gene28438:CDS 40.0%
CAAGAAGAATCAGAGGAGAG+AGG + chr4.4:8668898-8668917 MS.gene28438:CDS 45.0%
CAGCTTGCAAGAAGAATCAG+AGG + chr4.4:8668891-8668910 MS.gene28438:CDS 45.0%
CTTGCAAGCTGAATGTCCTT+AGG - chr4.4:8668882-8668901 None:intergenic 45.0%
TCACGAACAAGACGTTGGAA+TGG - chr4.4:8668717-8668736 None:intergenic 45.0%
TCTCTCAAAGCAACTGTTCC+AGG - chr4.4:8668648-8668667 None:intergenic 45.0%
AAGCCACACAGATTCAGACC+TGG + chr4.4:8668627-8668646 MS.gene28438:CDS 50.0%
CAGTGCTGTATCTGCTCTTC+AGG + chr4.4:8668776-8668795 MS.gene28438:CDS 50.0%
GTTCCAGGTCTGAATCTGTG+TGG - chr4.4:8668633-8668652 None:intergenic 50.0%
GCTGCTGAGGCTTACTTGGT+TGG + chr4.4:8668801-8668820 MS.gene28438:CDS 55.0%
GGAAGCTGCTGAGGCTTACT+TGG + chr4.4:8668797-8668816 MS.gene28438:CDS 55.0%
GTGTGGCTTCTTCACTCCTC+CGG - chr4.4:8668616-8668635 None:intergenic 55.0%
TGCTCTTCAGGAAGCTGCTG+AGG + chr4.4:8668788-8668807 MS.gene28438:CDS 55.0%
CAGACTGCTCGCAAGTCCAC+CGG + chr4.4:8668531-8668550 MS.gene28438:CDS 60.0%
GGACTTGCGAGCAGTCTGCT+TGG - chr4.4:8668529-8668548 None:intergenic 60.0%
TGATTTCCGAGCGGCCTTGG+TGG - chr4.4:8668583-8668602 None:intergenic 60.0%
TTCTTCACTCCTCCGGTCGC+CGG - chr4.4:8668609-8668628 None:intergenic 60.0%
! AGCTGATTTCCGAGCGGCCT+TGG - chr4.4:8668586-8668605 None:intergenic 60.0%
AAATCAGCTCCGGCGACCGG+AGG + chr4.4:8668597-8668616 MS.gene28438:CDS 65.0%
ACTGCTCGCAAGTCCACCGG+CGG + chr4.4:8668534-8668553 MS.gene28438:CDS 65.0%
CGGAAATCAGCTCCGGCGAC+CGG + chr4.4:8668594-8668613 MS.gene28438:CDS 65.0%
GGCCGCTCGGAAATCAGCTC+CGG + chr4.4:8668587-8668606 MS.gene28438:CDS 65.0%
! CGCCGGAGCTGATTTCCGAG+CGG - chr4.4:8668592-8668611 None:intergenic 65.0%
!! CCTTGGTGGCGAGCTGCTTC+CGG - chr4.4:8668569-8668588 None:intergenic 65.0%
!! CTTGGTGGCGAGCTGCTTCC+GGG - chr4.4:8668568-8668587 None:intergenic 65.0%
!! TTGGTGGCGAGCTGCTTCCG+GGG - chr4.4:8668567-8668586 None:intergenic 65.0%
AGCTCGCCACCAAGGCCGCT+CGG + chr4.4:8668574-8668593 MS.gene28438:CDS 70.0%
CCGGAAGCAGCTCGCCACCA+AGG + chr4.4:8668566-8668585 MS.gene28438:CDS 70.0%
TCGCAAGTCCACCGGCGGCA+AGG + chr4.4:8668539-8668558 MS.gene28438:CDS 70.0%
CTTCCGGGGAGCCTTGCCGC+CGG - chr4.4:8668553-8668572 None:intergenic 75.0%
! CCACCGGCGGCAAGGCTCCC+CGG + chr4.4:8668547-8668566 MS.gene28438:CDS 80.0%
! CCGGGGAGCCTTGCCGCCGG+TGG - chr4.4:8668550-8668569 None:intergenic 85.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 8668516 8668926 8668516 ID=MS.gene28438
chr4.4 mRNA 8668516 8668926 8668516 ID=MS.gene28438.t1;Parent=MS.gene28438
chr4.4 exon 8668516 8668926 8668516 ID=MS.gene28438.t1.exon1;Parent=MS.gene28438.t1
chr4.4 CDS 8668516 8668926 8668516 ID=cds.MS.gene28438.t1;Parent=MS.gene28438.t1
Gene Sequence

>MS.gene28438

ATGGCACGTACCAAGCAGACTGCTCGCAAGTCCACCGGCGGCAAGGCTCCCCGGAAGCAGCTCGCCACCAAGGCCGCTCGGAAATCAGCTCCGGCGACCGGAGGAGTGAAGAAGCCACACAGATTCAGACCTGGAACAGTTGCTTTGAGAGAGATTCGTAAGTATCAGAAGAGCACTGAGCTTCTCATCCGTAAACTTCCATTCCAACGTCTTGTTCGTGAAATTGCTCAAGATTTCAAGACAGATCTGAGGTTTCAGAGCAGTGCTGTATCTGCTCTTCAGGAAGCTGCTGAGGCTTACTTGGTTGGTCTCTTTGAAGACACAAATCTGTGCGCAATTCATGCTAAGAGAGTTACAATCATGCCTAAGGACATTCAGCTTGCAAGAAGAATCAGAGGAGAGAGGGCTTAG

Protein sequence

>MS.gene28438.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA