AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene027395

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene027395.t1 MTR_1g071040 94.030 134 8 0 1 134 1 134 8.21e-81 234
MS.gene027395.t1 MTR_1g114050 86.567 134 15 1 1 134 1 131 5.37e-78 226
MS.gene027395.t1 MTR_1g011750 82.090 134 24 0 1 134 1 134 3.22e-75 219
MS.gene027395.t1 MTR_1g011850 82.090 134 24 0 1 134 1 134 3.22e-75 219
MS.gene027395.t1 MTR_4g048490 66.418 134 16 1 1 134 1 105 2.54e-45 143
MS.gene027395.t1 MTR_7g027610 64.754 122 17 2 13 134 3 98 3.35e-41 133
MS.gene027395.t1 MTR_2g082510 63.889 108 37 2 24 130 14 120 9.73e-38 125
MS.gene027395.t1 MTR_2g082220 63.889 108 37 2 24 130 14 120 1.24e-37 124
MS.gene027395.t1 MTR_7g108320 61.682 107 39 2 25 130 21 126 4.48e-37 123
MS.gene027395.t1 MTR_7g114060 61.682 107 39 2 25 130 18 123 1.06e-36 122
MS.gene027395.t1 MTR_7g114040 61.682 107 39 2 25 130 18 123 1.06e-36 122
MS.gene027395.t1 MTR_7g093910 54.331 127 51 3 10 130 1 126 1.77e-36 122
MS.gene027395.t1 MTR_7g113160 54.783 115 50 2 19 132 19 132 5.05e-35 118
MS.gene027395.t1 MTR_4g063280 59.292 113 44 2 23 134 15 126 5.09e-35 118
MS.gene027395.t1 MTR_2g096610 60.550 109 41 2 23 130 19 126 6.26e-35 118
MS.gene027395.t1 MTR_4g071150 62.264 106 38 2 29 133 27 131 2.23e-34 117
MS.gene027395.t1 MTR_2g096570 61.321 106 39 2 29 133 26 130 4.17e-34 116
MS.gene027395.t1 MTR_4g064967 59.813 107 41 2 29 134 27 132 1.35e-33 115
MS.gene027395.t1 MTR_8g086640 59.813 107 41 2 29 134 27 132 1.66e-33 115
MS.gene027395.t1 MTR_4g064005 62.136 103 37 2 29 130 27 128 1.98e-33 114
MS.gene027395.t1 MTR_4g063410 61.165 103 38 2 29 130 27 128 5.87e-33 113
MS.gene027395.t1 MTR_0653s0030 57.407 108 21 1 5 112 15 97 5.58e-32 111
MS.gene027395.t1 MTR_7g114050 48.438 128 50 5 9 132 1 116 5.98e-26 95.1
MS.gene027395.t1 MTR_4g063300 62.687 67 24 1 55 120 17 83 5.82e-20 79.3
MS.gene027395.t1 MTR_6g005150 45.192 104 46 4 29 130 29 123 6.96e-18 74.7
MS.gene027395.t1 MTR_1g069770 44.595 74 39 2 63 134 24 97 2.87e-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.gene027395.t1 AT3G54560 87.500 136 15 1 1 134 1 136 6.66e-74 216
MS.gene027395.t1 AT3G54560 87.500 136 15 1 1 134 1 136 6.66e-74 216
MS.gene027395.t1 AT2G38810 85.294 136 18 1 1 134 1 136 1.14e-72 213
MS.gene027395.t1 AT2G38810 85.294 136 18 1 1 134 1 136 1.14e-72 213
MS.gene027395.t1 AT2G38810 85.294 136 18 1 1 134 1 136 1.14e-72 213
MS.gene027395.t1 AT2G38810 85.294 136 18 1 1 134 1 136 1.14e-72 213
MS.gene027395.t1 AT1G52740 79.104 134 28 0 1 134 1 134 3.16e-67 199
MS.gene027395.t1 AT4G13570 65.455 110 34 1 19 124 9 118 7.40e-45 142
MS.gene027395.t1 AT4G13570 75.556 90 22 0 35 124 35 124 4.16e-44 140
MS.gene027395.t1 AT1G51060 63.636 110 38 2 24 132 14 122 1.41e-38 127
MS.gene027395.t1 AT3G20670 63.889 108 37 2 24 130 14 120 6.23e-38 125
MS.gene027395.t1 AT4G27230 63.889 108 37 2 24 130 14 120 1.06e-37 125
MS.gene027395.t1 AT4G27230 63.889 108 37 2 24 130 14 120 1.06e-37 125
MS.gene027395.t1 AT5G54640 63.889 108 37 2 24 130 14 120 1.17e-37 124
MS.gene027395.t1 AT5G02560 59.292 113 44 2 23 134 21 132 4.47e-37 124
MS.gene027395.t1 AT1G08880 61.905 105 38 2 25 128 21 124 1.25e-36 122
MS.gene027395.t1 AT1G54690 61.905 105 38 2 25 128 21 124 1.84e-36 122
MS.gene027395.t1 AT5G27670 58.261 115 46 2 19 132 18 131 2.97e-35 119
MS.gene027395.t1 AT5G59870 57.658 111 45 2 23 132 21 130 1.72e-33 115
MS.gene027395.t1 AT5G02560 48.905 137 44 3 23 134 21 156 1.24e-31 110

Find 40 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCATTTGCAGCTGGCTATTA+GGG 0.226611 4.2:+52447393 MS.gene027395:CDS
GGCATTTGCAGCTGGCTATT+AGG 0.249205 4.2:+52447392 MS.gene027395:CDS
CCTCTTCACCTTCAAATCAT+TGG 0.303591 4.2:-52447359 None:intergenic
AAAGTAAAGAACTCATTCTT+TGG 0.335130 4.2:-52447506 None:intergenic
AGCAACAGCTGCAGTTTATC+TGG 0.338549 4.2:+52447282 MS.gene027395:CDS
AGTTTATCTGGCATCAATTC+TGG 0.339438 4.2:+52447294 MS.gene027395:CDS
GGATCCTACCCACAGGAAAC+TGG 0.357207 4.2:-52447216 None:intergenic
CAGCAATTGTTCCCTTGATA+AGG 0.371937 4.2:-52447435 None:intergenic
CTTATCAAGGGAACAATTGC+TGG 0.372156 4.2:+52447436 MS.gene027395:CDS
CTCCCACACGTCCATTAGCT+TGG 0.422586 4.2:-52447261 None:intergenic
AGCAATTGTTCCCTTGATAA+GGG 0.441041 4.2:-52447434 None:intergenic
CTCTTTGCTTCAGTTGTCTG+TGG 0.447904 4.2:-52447237 None:intergenic
AAGCAAAGAGTCCAAGCTAA+TGG 0.448909 4.2:+52447250 MS.gene027395:CDS
GACTGCAGAAGTTCTTGAAC+TGG 0.482588 4.2:+52447324 MS.gene027395:CDS
ACTTATCGTTCTTCTCGTGC+TGG 0.498286 4.2:+52447190 MS.gene027395:CDS
CACACCAAGGCATTTGCAGC+TGG 0.498611 4.2:+52447384 MS.gene027395:CDS
AGAACTTGATACCCTTATCA+AGG 0.509114 4.2:+52447423 MS.gene027395:CDS
GCAGAAGTTCTTGAACTGGC+TGG 0.518730 4.2:+52447328 MS.gene027395:CDS
GATTAAGCAATGGCAGGAAA+AGG 0.523608 4.2:+52447103 None:intergenic
AAATGCAACCAATGATTTGA+AGG 0.529114 4.2:+52447351 MS.gene027395:CDS
TGCTGGAATCCAGTTTCCTG+TGG 0.532053 4.2:+52447207 MS.gene027395:CDS
ATCAAGGACTTGTGAATGCT+AGG 0.547647 4.2:-52447472 None:intergenic
ATAGCCAGCTGCAAATGCCT+TGG 0.558142 4.2:-52447388 None:intergenic
AGCACGAGAAGAACGATAAG+TGG 0.561325 4.2:-52447188 None:intergenic
CAAGGTGATTAAGCAATGGC+AGG 0.563211 4.2:+52447097 None:intergenic
AATGGCAGGAAAAGGAGAAG+AGG 0.580632 4.2:+52447111 None:intergenic
CCAATGATTTGAAGGTGAAG+AGG 0.582473 4.2:+52447359 MS.gene027395:CDS
GTCCAAGCTAATGGACGTGT+GGG 0.594226 4.2:+52447259 MS.gene027395:CDS
GAATCCAGTTTCCTGTGGGT+AGG 0.598381 4.2:+52447212 MS.gene027395:CDS
ATGGCAGGAAAAGGAGAAGA+GGG 0.598808 4.2:+52447112 MS.gene027395:CDS
AGTCCAAGCTAATGGACGTG+TGG 0.600498 4.2:+52447258 MS.gene027395:CDS
CATTTGCAGCTGGCTATTAG+GGG 0.616027 4.2:+52447394 MS.gene027395:CDS
GCTGGAATCCAGTTTCCTGT+GGG 0.620170 4.2:+52447208 MS.gene027395:CDS
GAACTTGATACCCTTATCAA+GGG 0.621003 4.2:+52447424 MS.gene027395:CDS
AAGGGAACAATTGCTGGTGG+TGG 0.621502 4.2:+52447442 MS.gene027395:CDS
TGTCTGTGGATCCTACCCAC+AGG 0.650154 4.2:-52447223 None:intergenic
GCACGAGAAGAACGATAAGT+GGG 0.650746 4.2:-52447187 None:intergenic
ATCAAGGGAACAATTGCTGG+TGG 0.659902 4.2:+52447439 MS.gene027395:CDS
AGGTGAAGAGGATCACACCA+AGG 0.738476 4.2:+52447371 MS.gene027395:CDS
CGTTGCAGCGAAAATCACTG+CGG 0.858258 4.2:+52447138 MS.gene027395:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAATGCAACCAATGATTTGA+AGG + chr4.2:52447351-52447370 MS.gene027395:CDS 30.0%
!!! TTTGGTAGTTTTGTTGATCA+AGG - chr4.2:52447491-52447510 None:intergenic 30.0%
AGAACTTGATACCCTTATCA+AGG + chr4.2:52447423-52447442 MS.gene027395:CDS 35.0%
AGCAATTGTTCCCTTGATAA+GGG - chr4.2:52447437-52447456 None:intergenic 35.0%
AGTTTATCTGGCATCAATTC+TGG + chr4.2:52447294-52447313 MS.gene027395:CDS 35.0%
GAACTTGATACCCTTATCAA+GGG + chr4.2:52447424-52447443 MS.gene027395:CDS 35.0%
AAGCAAAGAGTCCAAGCTAA+TGG + chr4.2:52447250-52447269 MS.gene027395:CDS 40.0%
ATCAAGGACTTGTGAATGCT+AGG - chr4.2:52447475-52447494 None:intergenic 40.0%
CAGCAATTGTTCCCTTGATA+AGG - chr4.2:52447438-52447457 None:intergenic 40.0%
CCAATGATTTGAAGGTGAAG+AGG + chr4.2:52447359-52447378 MS.gene027395:CDS 40.0%
CCTCTTCACCTTCAAATCAT+TGG - chr4.2:52447362-52447381 None:intergenic 40.0%
CTTATCAAGGGAACAATTGC+TGG + chr4.2:52447436-52447455 MS.gene027395:CDS 40.0%
ACTTATCGTTCTTCTCGTGC+TGG + chr4.2:52447190-52447209 MS.gene027395:CDS 45.0%
AGCAACAGCTGCAGTTTATC+TGG + chr4.2:52447282-52447301 MS.gene027395:CDS 45.0%
AGCACGAGAAGAACGATAAG+TGG - chr4.2:52447191-52447210 None:intergenic 45.0%
ATCAAGGGAACAATTGCTGG+TGG + chr4.2:52447439-52447458 MS.gene027395:CDS 45.0%
ATGGCAGGAAAAGGAGAAGA+GGG + chr4.2:52447112-52447131 MS.gene027395:CDS 45.0%
CATTTGCAGCTGGCTATTAG+GGG + chr4.2:52447394-52447413 MS.gene027395:CDS 45.0%
CTCTTTGCTTCAGTTGTCTG+TGG - chr4.2:52447240-52447259 None:intergenic 45.0%
GACTGCAGAAGTTCTTGAAC+TGG + chr4.2:52447324-52447343 MS.gene027395:CDS 45.0%
GCACGAGAAGAACGATAAGT+GGG - chr4.2:52447190-52447209 None:intergenic 45.0%
GCATTTGCAGCTGGCTATTA+GGG + chr4.2:52447393-52447412 MS.gene027395:CDS 45.0%
AAGGGAACAATTGCTGGTGG+TGG + chr4.2:52447442-52447461 MS.gene027395:CDS 50.0%
AGGTGAAGAGGATCACACCA+AGG + chr4.2:52447371-52447390 MS.gene027395:CDS 50.0%
ATAGCCAGCTGCAAATGCCT+TGG - chr4.2:52447391-52447410 None:intergenic 50.0%
CGTTGCAGCGAAAATCACTG+CGG + chr4.2:52447138-52447157 MS.gene027395:CDS 50.0%
GAATCCAGTTTCCTGTGGGT+AGG + chr4.2:52447212-52447231 MS.gene027395:CDS 50.0%
GCAGAAGTTCTTGAACTGGC+TGG + chr4.2:52447328-52447347 MS.gene027395:CDS 50.0%
GCTGGAATCCAGTTTCCTGT+GGG + chr4.2:52447208-52447227 MS.gene027395:CDS 50.0%
GGCATTTGCAGCTGGCTATT+AGG + chr4.2:52447392-52447411 MS.gene027395:CDS 50.0%
TGCTGGAATCCAGTTTCCTG+TGG + chr4.2:52447207-52447226 MS.gene027395:CDS 50.0%
! AGTCCAAGCTAATGGACGTG+TGG + chr4.2:52447258-52447277 MS.gene027395:CDS 50.0%
! GTCCAAGCTAATGGACGTGT+GGG + chr4.2:52447259-52447278 MS.gene027395:CDS 50.0%
CTCCCACACGTCCATTAGCT+TGG - chr4.2:52447264-52447283 None:intergenic 55.0%
GGATCCTACCCACAGGAAAC+TGG - chr4.2:52447219-52447238 None:intergenic 55.0%
TGTCTGTGGATCCTACCCAC+AGG - chr4.2:52447226-52447245 None:intergenic 55.0%
! CACACCAAGGCATTTGCAGC+TGG + chr4.2:52447384-52447403 MS.gene027395:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 52447112 52447516 52447112 ID=MS.gene027395
chr4.2 mRNA 52447112 52447516 52447112 ID=MS.gene027395.t1;Parent=MS.gene027395
chr4.2 exon 52447112 52447516 52447112 ID=MS.gene027395.t1.exon1;Parent=MS.gene027395.t1
chr4.2 CDS 52447112 52447516 52447112 ID=cds.MS.gene027395.t1;Parent=MS.gene027395.t1
Gene Sequence

>MS.gene027395

ATGGCAGGAAAAGGAGAAGAGGGACTCGTTGCAGCGAAAATCACTGCGGCTAACAAAGACAAAGACAAGAAGAAACCCACTTATCGTTCTTCTCGTGCTGGAATCCAGTTTCCTGTGGGTAGGATCCACAGACAACTGAAGCAAAGAGTCCAAGCTAATGGACGTGTGGGAGCAACAGCTGCAGTTTATCTGGCATCAATTCTGGAGTATCTGACTGCAGAAGTTCTTGAACTGGCTGGAAATGCAACCAATGATTTGAAGGTGAAGAGGATCACACCAAGGCATTTGCAGCTGGCTATTAGGGGAGATGAAGAACTTGATACCCTTATCAAGGGAACAATTGCTGGTGGTGGTGTCATTCCTAGCATTCACAAGTCCTTGATCAACAAAACTACCAAAGAATGA
Protein sequence

>MS.gene027395.t1

MAGKGEEGLVAAKITAANKDKDKKKPTYRSSRAGIQFPVGRIHRQLKQRVQANGRVGATAAVYLASILEYLTAEVLELAGNATNDLKVKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPSIHKSLINKTTKE