AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene23007

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene23007.t1 MTR_7g108220 98.058 103 2 0 1 103 1 103 3.68e-74 214
MS.gene23007.t1 MTR_7g108210 97.087 103 3 0 1 103 1 103 1.10e-73 213
MS.gene23007.t1 MTR_1g088910 88.350 103 11 1 1 103 1 102 3.30e-63 187
MS.gene23007.t1 MTR_2g019950 64.078 103 36 1 1 103 1 102 4.08e-46 144
MS.gene23007.t1 MTR_2g019900 55.882 102 44 1 1 102 1 101 2.64e-36 119
MS.gene23007.t1 MTR_4g119050 50.485 103 51 0 1 103 1 103 2.57e-33 111
MS.gene23007.t1 MTR_4g119030 50.485 103 51 0 1 103 1 103 2.57e-33 111
MS.gene23007.t1 MTR_4g119040 50.485 103 51 0 1 103 1 103 2.57e-33 111
MS.gene23007.t1 MTR_7g108200 53.684 95 43 1 1 95 1 94 1.20e-32 110
MS.gene23007.t1 MTR_1g088920 51.579 95 45 1 1 95 1 94 3.52e-31 106
MS.gene23007.t1 MTR_1g088925 49.474 95 47 1 1 95 1 94 8.45e-31 105
MS.gene23007.t1 MTR_7g026770 48.544 103 53 0 1 103 22 124 2.00e-30 109
MS.gene23007.t1 MTR_7g022550 44.660 103 57 0 1 103 30 132 1.40e-28 100
MS.gene23007.t1 MTR_7g108250 47.573 103 53 1 1 103 1 102 1.41e-28 99.8
MS.gene23007.t1 MTR_7g022690 44.660 103 57 0 1 103 30 132 1.63e-28 100
MS.gene23007.t1 MTR_7g022710 44.660 103 57 0 1 103 30 132 4.69e-28 99.4
MS.gene23007.t1 MTR_1g088905 45.631 103 55 1 1 103 1 102 3.08e-27 96.3
MS.gene23007.t1 MTR_7g108260 42.718 103 58 1 1 103 1 102 3.55e-25 90.9
MS.gene23007.t1 MTR_1g088895 45.000 100 54 1 4 103 4 102 2.21e-22 84.0
MS.gene23007.t1 MTR_2g048970 40.000 105 60 1 2 103 29 133 2.76e-20 79.3
MS.gene23007.t1 MTR_2g014760 35.294 102 65 1 2 103 27 127 5.34e-19 75.9
MS.gene23007.t1 MTR_3g077570 39.604 101 60 1 1 101 18 117 6.57e-19 75.5
MS.gene23007.t1 MTR_3g077560 37.624 101 62 1 1 101 21 120 1.61e-16 69.7
MS.gene23007.t1 MTR_2g090755 31.731 104 63 2 4 103 41 140 2.90e-16 69.3
MS.gene23007.t1 MTR_7g035245 36.634 101 63 1 1 101 3 102 2.29e-15 66.2
MS.gene23007.t1 MTR_1g015890 35.294 102 65 1 3 103 48 149 5.66e-15 66.2
MS.gene23007.t1 MTR_1g069255 36.000 100 62 2 2 100 84 182 6.07e-14 64.3
MS.gene23007.t1 MTR_4g079110 33.333 99 64 2 6 103 58 155 2.07e-13 62.4
MS.gene23007.t1 MTR_5g077550 33.010 103 68 1 2 103 21 123 5.30e-11 55.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene23007.t1 AT3G62950 73.786 103 27 0 1 103 1 103 2.76e-54 164
MS.gene23007.t1 AT2G47870 72.816 103 28 0 1 103 1 103 5.78e-51 156
MS.gene23007.t1 AT3G21460 57.282 103 43 1 1 103 1 102 1.16e-41 132
MS.gene23007.t1 AT4G15700 49.515 103 51 1 1 103 1 102 3.88e-33 111
MS.gene23007.t1 AT4G15690 48.544 103 52 1 1 103 1 102 8.26e-33 110
MS.gene23007.t1 AT5G18600 50.980 102 49 1 1 102 1 101 1.21e-32 110
MS.gene23007.t1 AT4G15670 47.573 103 53 1 1 103 1 102 1.31e-32 109
MS.gene23007.t1 AT4G15680 47.573 103 53 1 1 103 1 102 2.66e-32 108
MS.gene23007.t1 AT4G15660 46.602 103 54 1 1 103 1 102 4.36e-32 108
MS.gene23007.t1 AT2G47880 45.631 103 55 1 1 103 1 102 1.19e-29 102
MS.gene23007.t1 AT5G14070 43.636 110 55 1 1 103 31 140 2.17e-28 100
MS.gene23007.t1 AT3G62960 48.421 95 48 1 1 95 1 94 8.78e-28 97.8
MS.gene23007.t1 AT3G62930 49.020 102 51 1 1 102 1 101 1.58e-27 97.1
MS.gene23007.t1 AT2G30540 45.000 100 54 1 1 100 1 99 4.63e-27 95.9
MS.gene23007.t1 AT1G06830 49.451 91 45 1 1 91 1 90 5.97e-27 95.5
MS.gene23007.t1 AT1G03020 47.573 103 53 1 1 103 1 102 7.65e-27 95.5
MS.gene23007.t1 AT3G02000 44.340 106 54 1 3 103 31 136 4.66e-24 89.4
MS.gene23007.t1 AT1G28480 30.476 105 70 1 2 103 33 137 8.77e-17 70.9
MS.gene23007.t1 AT4G33040 33.333 105 65 2 3 103 41 144 7.62e-16 68.6
MS.gene23007.t1 AT5G40370 34.653 101 65 1 1 101 3 102 1.72e-15 66.6
MS.gene23007.t1 AT5G63030 37.624 101 62 1 1 101 19 118 4.99e-15 65.9
MS.gene23007.t1 AT5G20500 40.426 94 55 1 2 95 33 125 2.06e-13 62.0
MS.gene23007.t1 AT5G11930 30.693 101 59 2 3 102 57 147 3.31e-12 59.3
MS.gene23007.t1 AT4G28730 32.653 98 64 2 2 98 71 167 6.42e-12 58.9
MS.gene23007.t1 AT2G20270 34.000 100 64 2 2 100 76 174 8.21e-12 58.5
MS.gene23007.t1 AT1G77370 37.805 82 50 1 14 95 47 127 2.63e-11 56.2
MS.gene23007.t1 AT5G40370 37.931 87 53 1 15 101 42 127 9.17e-11 55.1

Find 21 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGGCTTTGAGGGGTAATTT+TGG 0.163070 7.2:+6740979 MS.gene23007:CDS
ATCTCTCAAACAAATGCTTA+TGG 0.308670 7.2:+6741086 MS.gene23007:CDS
AGAAATGGAATGGGCTTTGA+GGG 0.421581 7.2:+6740969 MS.gene23007:CDS
TTATGGATGCAAAGGCCATT+TGG 0.421738 7.2:+6741103 MS.gene23007:CDS
GTGATATCTCATCATGTTGA+TGG 0.433725 7.2:+6741063 MS.gene23007:CDS
TTTCCACCTATGAACACTGC+TGG 0.435337 7.2:-6741018 None:intergenic
TTCATAGGTGGAAAATTTGT+AGG 0.443244 7.2:+6741027 MS.gene23007:CDS
GAGAAATGGAATGGGCTTTG+AGG 0.460487 7.2:+6740968 MS.gene23007:CDS
TGATTCATATGGTAGAGAAA+TGG 0.467021 7.2:+6740954 MS.gene23007:CDS
TAACTATGACTAAAACCAAA+TGG 0.482233 7.2:-6741118 None:intergenic
TTTAGTAATGGATAGAGTAA+AGG 0.488700 7.2:+6740813 None:intergenic
GAACTAGACAATGATTCATA+TGG 0.494073 7.2:+6740943 MS.gene23007:CDS
ACGGTTCCAGCAGTGTTCAT+AGG 0.515510 7.2:+6741012 MS.gene23007:CDS
CATATGGTAGAGAAATGGAA+TGG 0.521337 7.2:+6740959 MS.gene23007:CDS
ATGAACACTGCTGGAACCGT+AGG 0.531855 7.2:-6741009 None:intergenic
ACAAATGCTTATGGATGCAA+AGG 0.548540 7.2:+6741095 MS.gene23007:CDS
TTGTCTAGTTCATACACTGC+AGG 0.569837 7.2:-6740931 None:intergenic
ATATGGTAGAGAAATGGAAT+GGG 0.575278 7.2:+6740960 MS.gene23007:CDS
TGAACACTGCTGGAACCGTA+GGG 0.631550 7.2:-6741008 None:intergenic
GTTCCAGCAGTGTTCATAGG+TGG 0.634795 7.2:+6741015 MS.gene23007:CDS
GAAATGGAATGGGCTTTGAG+GGG 0.638948 7.2:+6740970 MS.gene23007:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATATGGTAGAGAAATGGAAT+GGG + chr7.2:6740960-6740979 MS.gene23007:CDS 30.0%
ATCTCTCAAACAAATGCTTA+TGG + chr7.2:6741086-6741105 MS.gene23007:CDS 30.0%
GAACTAGACAATGATTCATA+TGG + chr7.2:6740943-6740962 MS.gene23007:CDS 30.0%
TGATTCATATGGTAGAGAAA+TGG + chr7.2:6740954-6740973 MS.gene23007:CDS 30.0%
TTCATAGGTGGAAAATTTGT+AGG + chr7.2:6741027-6741046 MS.gene23007:CDS 30.0%
! AAGCAACTTTTCTATGAACT+TGG + chr7.2:6740901-6740920 MS.gene23007:CDS 30.0%
! ATGAGATATCACATCTTTTG+AGG - chr7.2:6741055-6741074 None:intergenic 30.0%
! TAATTTTGGATGTAACCCTA+CGG + chr7.2:6740993-6741012 MS.gene23007:CDS 30.0%
ACAAATGCTTATGGATGCAA+AGG + chr7.2:6741095-6741114 MS.gene23007:CDS 35.0%
CATATGGTAGAGAAATGGAA+TGG + chr7.2:6740959-6740978 MS.gene23007:CDS 35.0%
GTGATATCTCATCATGTTGA+TGG + chr7.2:6741063-6741082 MS.gene23007:CDS 35.0%
TTATGGATGCAAAGGCCATT+TGG + chr7.2:6741103-6741122 MS.gene23007:CDS 40.0%
! AGAAATGGAATGGGCTTTGA+GGG + chr7.2:6740969-6740988 MS.gene23007:CDS 40.0%
! TTGTCTAGTTCATACACTGC+AGG - chr7.2:6740934-6740953 None:intergenic 40.0%
TTTCCACCTATGAACACTGC+TGG - chr7.2:6741021-6741040 None:intergenic 45.0%
! GAGAAATGGAATGGGCTTTG+AGG + chr7.2:6740968-6740987 MS.gene23007:CDS 45.0%
!! GAAATGGAATGGGCTTTGAG+GGG + chr7.2:6740970-6740989 MS.gene23007:CDS 45.0%
!!! TGGGCTTTGAGGGGTAATTT+TGG + chr7.2:6740979-6740998 MS.gene23007:CDS 45.0%
ACGGTTCCAGCAGTGTTCAT+AGG + chr7.2:6741012-6741031 MS.gene23007:CDS 50.0%
ATGAACACTGCTGGAACCGT+AGG - chr7.2:6741012-6741031 None:intergenic 50.0%
GTTCCAGCAGTGTTCATAGG+TGG + chr7.2:6741015-6741034 MS.gene23007:CDS 50.0%
TGAACACTGCTGGAACCGTA+GGG - chr7.2:6741011-6741030 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 6740820 6741131 6740820 ID=MS.gene23007
chr7.2 mRNA 6740820 6741131 6740820 ID=MS.gene23007.t1;Parent=MS.gene23007
chr7.2 exon 6740820 6741131 6740820 ID=MS.gene23007.t1.exon1;Parent=MS.gene23007.t1
chr7.2 CDS 6740820 6741131 6740820 ID=cds.MS.gene23007.t1;Parent=MS.gene23007.t1
Gene Sequence

>MS.gene23007

ATGGATAGAGTAAAGGATTTAGCATCAAAGAAAGCTGCAGTTATATTTACAAAGAGTTCATGTTACATGTGTCATAGCATCAAGCAACTTTTCTATGAACTTGGAGCAAGTCCTGCAGTGTATGAACTAGACAATGATTCATATGGTAGAGAAATGGAATGGGCTTTGAGGGGTAATTTTGGATGTAACCCTACGGTTCCAGCAGTGTTCATAGGTGGAAAATTTGTAGGATCCTCAAAAGATGTGATATCTCATCATGTTGATGGATCTCTCAAACAAATGCTTATGGATGCAAAGGCCATTTGGTTTTAG
Protein sequence

>MS.gene23007.t1

MDRVKDLASKKAAVIFTKSSCYMCHSIKQLFYELGASPAVYELDNDSYGREMEWALRGNFGCNPTVPAVFIGGKFVGSSKDVISHHVDGSLKQMLMDAKAIWF