AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene003123

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene003123.t1 MTR_2g026710 86.207 87 7 2 1 83 1 86 1.20e-46 146
MS.gene003123.t1 MTR_5g095740 76.344 93 11 2 1 83 1 92 1.20e-43 139
MS.gene003123.t1 MTR_3g058980 72.165 97 12 2 1 83 1 96 2.93e-42 136
MS.gene003123.t1 MTR_8g091720 81.818 77 13 1 7 83 22 97 7.46e-40 130
MS.gene003123.t1 MTR_7g100650 81.944 72 12 1 12 83 25 95 3.94e-38 125
MS.gene003123.t1 MTR_7g061270 81.944 72 12 1 12 83 25 95 3.96e-38 125
MS.gene003123.t1 MTR_4g133938 73.034 89 17 3 1 83 1 88 2.42e-37 122
MS.gene003123.t1 MTR_1g072790 75.000 76 18 1 8 83 24 98 1.57e-36 121
MS.gene003123.t1 MTR_8g093920 77.778 72 15 1 12 83 39 109 5.54e-36 120
MS.gene003123.t1 MTR_0392s0020 71.233 73 21 0 2 74 7 79 2.81e-34 114
MS.gene003123.t1 MTR_1g088860 80.952 63 12 0 12 74 35 97 2.34e-33 114
MS.gene003123.t1 MTR_4g119500 72.222 72 19 1 4 74 12 83 2.31e-32 109
MS.gene003123.t1 MTR_4g133952 66.667 78 24 2 3 80 49 124 5.22e-31 108
MS.gene003123.t1 MTR_1g039040 63.889 72 25 1 9 80 2 72 4.45e-30 105
MS.gene003123.t1 MTR_1g083070 72.581 62 17 0 13 74 4 65 2.39e-28 99.0
MS.gene003123.t1 MTR_1g029070 57.895 57 24 0 18 74 57 113 2.39e-17 72.4
MS.gene003123.t1 MTR_5g095900 46.753 77 38 1 1 74 1 77 5.14e-16 68.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene003123.t1 AT4G14540 76.923 91 12 2 1 83 1 90 9.46e-44 139
MS.gene003123.t1 AT5G47640 89.855 69 6 1 12 80 26 93 3.47e-39 128
MS.gene003123.t1 AT2G38880 72.289 83 21 2 2 83 9 90 1.76e-37 122
MS.gene003123.t1 AT2G38880 72.289 83 21 2 2 83 9 90 2.71e-37 122
MS.gene003123.t1 AT2G38880 72.289 83 21 2 2 83 9 90 3.28e-37 122
MS.gene003123.t1 AT2G38880 72.289 83 21 2 2 83 9 90 3.28e-37 122
MS.gene003123.t1 AT2G38880 72.289 83 21 2 2 83 9 90 3.28e-37 122
MS.gene003123.t1 AT2G38880 75.000 80 18 2 2 80 9 87 4.45e-37 120
MS.gene003123.t1 AT2G38880 72.289 83 21 2 2 83 9 90 1.05e-36 121
MS.gene003123.t1 AT2G38880 72.289 83 21 2 2 83 9 90 1.05e-36 121
MS.gene003123.t1 AT2G38880 75.000 80 18 2 2 80 9 87 2.17e-36 120
MS.gene003123.t1 AT2G38880 75.000 80 18 2 2 80 9 87 2.17e-36 120
MS.gene003123.t1 AT2G38880 75.000 80 18 2 2 80 9 87 2.17e-36 120
MS.gene003123.t1 AT2G13570 77.778 72 15 1 12 83 35 105 3.21e-36 121
MS.gene003123.t1 AT2G37060 76.389 72 16 1 12 83 29 99 4.12e-36 120
MS.gene003123.t1 AT2G37060 76.389 72 16 1 12 83 29 99 4.12e-36 120
MS.gene003123.t1 AT2G37060 76.389 72 16 1 12 83 29 99 4.12e-36 120
MS.gene003123.t1 AT3G53340 75.342 73 17 1 8 80 24 95 7.45e-36 118
MS.gene003123.t1 AT3G53340 75.342 73 17 1 8 80 24 95 1.36e-35 119
MS.gene003123.t1 AT3G53340 75.342 73 17 1 8 80 24 95 1.36e-35 119
MS.gene003123.t1 AT2G47810 80.882 68 13 0 7 74 45 112 1.75e-35 118
MS.gene003123.t1 AT3G53340 75.342 73 17 1 8 80 24 95 4.81e-35 116
MS.gene003123.t1 AT3G53340 75.342 73 17 1 8 80 24 95 4.81e-35 116
MS.gene003123.t1 AT5G47670 68.116 69 21 1 12 80 28 95 5.50e-30 105
MS.gene003123.t1 AT5G47670 68.116 69 21 1 12 80 57 124 9.03e-30 105
MS.gene003123.t1 AT5G47670 68.116 69 21 1 12 80 57 124 9.03e-30 105
MS.gene003123.t1 AT1G21970 64.286 70 24 1 11 80 57 125 5.00e-29 103
MS.gene003123.t1 AT1G09030 66.176 68 21 1 13 80 3 68 7.65e-29 100
MS.gene003123.t1 AT5G08190 36.508 63 40 0 10 72 8 70 4.51e-11 55.8
MS.gene003123.t1 AT5G08190 36.508 63 40 0 10 72 8 70 4.73e-11 55.8
MS.gene003123.t1 AT5G23090 34.921 63 41 0 10 72 8 70 8.33e-11 55.1
MS.gene003123.t1 AT5G23090 34.921 63 41 0 10 72 8 70 8.93e-11 55.1
MS.gene003123.t1 AT5G23090 34.921 63 41 0 10 72 8 70 8.93e-11 55.1
MS.gene003123.t1 AT5G23090 34.921 63 41 0 10 72 8 70 8.93e-11 55.1

Find 13 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGAGATCTTTGCGTTTGC+TGG 0.274169 2.2:+60261761 None:intergenic
ATCCTACTCACGTTTGCTAT+TGG 0.294063 2.2:+60261800 None:intergenic
CGTGAGTAGGATCATGAAAA+AGG 0.331544 2.2:-60261789 MS.gene003123:CDS
GAGTTCATCAGTTTCATAAC+AGG 0.366706 2.2:-60261704 MS.gene003123:CDS
CAGGTTGCAGAGAGCAAGAT+AGG 0.404952 2.2:-60261829 MS.gene003123:CDS
AAACATTATGGATGGTGGTT+TGG 0.443613 2.2:-60261117 MS.gene003123:CDS
GAGGGTACAGTGAAACATTA+TGG 0.444819 2.2:-60261129 MS.gene003123:CDS
GAATCAGACAATGAGTCAGC+AGG 0.557061 2.2:-60261848 MS.gene003123:CDS
ATAAGTGTCAGAAAGAGAAG+AGG 0.567471 2.2:-60261670 MS.gene003123:CDS
TTCCAATAGCAAACGTGAGT+AGG 0.595976 2.2:-60261802 MS.gene003123:CDS
CAGTGAAACATTATGGATGG+TGG 0.597619 2.2:-60261122 MS.gene003123:CDS
GAGAAGAGGAAAACAATCAA+CGG 0.615125 2.2:-60261656 MS.gene003123:intron
GTACAGTGAAACATTATGGA+TGG 0.625851 2.2:-60261125 MS.gene003123:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTGCAACAATATATCTA+GGG + chr2.2:60261805-60261824 None:intergenic 20.0%
!! ATTTCTTTCAGTTTAATCAT+AGG + chr2.2:60261704-60261723 None:intergenic 20.0%
!! TAAATTGCAACAATATATCT+AGG + chr2.2:60261806-60261825 None:intergenic 20.0%
! TTACTCAAATAAATCTTGAG+TGG + chr2.2:60261387-60261406 None:intergenic 25.0%
!!! GCAATTTAATTTGTTGTTGA+GGG - chr2.2:60261818-60261837 MS.gene003123:CDS 25.0%
!!! TATTCTTTAAGATTGCAACA+AGG + chr2.2:60261670-60261689 None:intergenic 25.0%
!!! TGCAATTTAATTTGTTGTTG+AGG - chr2.2:60261817-60261836 MS.gene003123:CDS 25.0%
ATCATCATCATCATAGAAGA+TGG + chr2.2:60261519-60261538 None:intergenic 30.0%
GACATAATATGTATGGATCT+GGG - chr2.2:60261541-60261560 MS.gene003123:intron 30.0%
TTGCTCATTATGATCTTATC+TGG + chr2.2:60261622-60261641 None:intergenic 30.0%
TTTGAGTAAGTATAGAGAGA+TGG - chr2.2:60261398-60261417 MS.gene003123:intron 30.0%
! ATCTTCTATGATGATGATGA+TGG - chr2.2:60261518-60261537 MS.gene003123:intron 30.0%
! ATGATGGGACATAATATGTA+TGG - chr2.2:60261534-60261553 MS.gene003123:intron 30.0%
! TCTTCTATGATGATGATGAT+GGG - chr2.2:60261519-60261538 MS.gene003123:intron 30.0%
AGTAAGTATAGAGAGATGGA+AGG - chr2.2:60261402-60261421 MS.gene003123:intron 35.0%
ATAAGTGTCAGAAAGAGAAG+AGG - chr2.2:60261295-60261314 MS.gene003123:intron 35.0%
GAGAAGAGGAAAACAATCAA+CGG - chr2.2:60261309-60261328 MS.gene003123:intron 35.0%
GAGTTCATCAGTTTCATAAC+AGG - chr2.2:60261261-60261280 MS.gene003123:intron 35.0%
GGACATAATATGTATGGATC+TGG - chr2.2:60261540-60261559 MS.gene003123:intron 35.0%
GTACAGTGAAACATTATGGA+TGG - chr2.2:60261840-60261859 MS.gene003123:CDS 35.0%
! AAACATTATGGATGGTGGTT+TGG - chr2.2:60261848-60261867 MS.gene003123:CDS 35.0%
AATATGTATGGATCTGGGAG+TGG - chr2.2:60261546-60261565 MS.gene003123:intron 40.0%
CAACGGTGATGATCTTCTTT+GGG - chr2.2:60261326-60261345 MS.gene003123:intron 40.0%
CAGTGAAACATTATGGATGG+TGG - chr2.2:60261843-60261862 MS.gene003123:CDS 40.0%
CGTGAGTAGGATCATGAAAA+AGG - chr2.2:60261176-60261195 MS.gene003123:intron 40.0%
GATCAGAGAGATGGAAATGT+TGG - chr2.2:60261453-60261472 MS.gene003123:intron 40.0%
TCAACGGTGATGATCTTCTT+TGG - chr2.2:60261325-60261344 MS.gene003123:intron 40.0%
TTCCAATAGCAAACGTGAGT+AGG - chr2.2:60261163-60261182 MS.gene003123:intron 40.0%
! AGAGATGGAAATGTTGGTGA+GGG - chr2.2:60261459-60261478 MS.gene003123:intron 40.0%
! GAGGGTACAGTGAAACATTA+TGG - chr2.2:60261836-60261855 MS.gene003123:CDS 40.0%
! TCTTATCTGGCTCAAGAGAT+TGG + chr2.2:60261609-60261628 None:intergenic 40.0%
! TTTGAGATCTTTGCGTTTGC+TGG + chr2.2:60261207-60261226 None:intergenic 40.0%
!! ATCCTACTCACGTTTGCTAT+TGG + chr2.2:60261168-60261187 None:intergenic 40.0%
CTTTGGGCTATGACAACTCT+TGG - chr2.2:60261342-60261361 MS.gene003123:intron 45.0%
GAATCAGACAATGAGTCAGC+AGG - chr2.2:60261117-60261136 MS.gene003123:CDS 45.0%
GAGAGATGGAAATGTTGGTG+AGG - chr2.2:60261458-60261477 MS.gene003123:intron 45.0%
GGAGTTTATGGTCATGGAGT+TGG - chr2.2:60261489-60261508 MS.gene003123:intron 45.0%
! AGAAGAGTGCGATGATTGGT+AGG - chr2.2:60261427-60261446 MS.gene003123:intron 45.0%
! AGTGGTGGAGTTTATGGTCA+TGG - chr2.2:60261483-60261502 MS.gene003123:intron 45.0%
CAGGTTGCAGAGAGCAAGAT+AGG - chr2.2:60261136-60261155 MS.gene003123:intron 50.0%
CGAGTACTCCTTCCAGAAGA+TGG + chr2.2:60261576-60261595 None:intergenic 50.0%
GGTAGGAGTGATCAGAGAGA+TGG - chr2.2:60261444-60261463 MS.gene003123:intron 50.0%
! AATGTTGGTGAGGGTAGTGG+TGG - chr2.2:60261468-60261487 MS.gene003123:intron 50.0%
! GAGGGTAGTGGTGGAGTTTA+TGG - chr2.2:60261477-60261496 MS.gene003123:intron 50.0%
! GGAAATGTTGGTGAGGGTAG+TGG - chr2.2:60261465-60261484 MS.gene003123:intron 50.0%
! GGAGAGAAGAGTGCGATGAT+TGG - chr2.2:60261423-60261442 MS.gene003123:intron 50.0%
GTGGATCGCCATCTTCTGGA+AGG - chr2.2:60261565-60261584 MS.gene003123:intron 55.0%
GGGAGTGGATCGCCATCTTC+TGG - chr2.2:60261561-60261580 MS.gene003123:intron 60.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 60261111 60261876 60261111 ID=MS.gene003123
chr2.2 mRNA 60261111 60261876 60261111 ID=MS.gene003123.t1;Parent=MS.gene003123
chr2.2 exon 60261657 60261876 60261657 ID=MS.gene003123.t1.exon1;Parent=MS.gene003123.t1
chr2.2 CDS 60261657 60261876 60261657 ID=cds.MS.gene003123.t1;Parent=MS.gene003123.t1
chr2.2 exon 60261111 60261148 60261111 ID=MS.gene003123.t1.exon2;Parent=MS.gene003123.t1
chr2.2 CDS 60261111 60261148 60261111 ID=cds.MS.gene003123.t1;Parent=MS.gene003123.t1
Gene Sequence

>MS.gene003123

ATGGCTGAATCAGACAATGAGTCAGCAGGTTGCAGAGAGCAAGATAGGTTTCTTCCAATAGCAAACGTGAGTAGGATCATGAAAAAGGCTTTACCAGCAAACGCAAAGATCTCAAAAGAAGCAAAAGAAACAGTGCAAGAGTGTGTATCAGAGTTCATCAGTTTCATAACAGGAGAAGCTTCTGATAAGTGTCAGAAAGAGAAGAGGAAAACAATCAACGGTGATGATCTTCTTTGGGCTATGACAACTCTTGGATTTGAAGATTATGTTGAGCCACTCAAGATTTATTTGAGTAAGTATAGAGAGATGGAAGGAGAGAAGAGTGCGATGATTGGTAGGAGTGATCAGAGAGATGGAAATGTTGGTGAGGGTAGTGGTGGAGTTTATGGTCATGGAGTTGGAGTTCCATCTTCTATGATGATGATGATGGGACATAATATGTATGGATCTGGGAGTGGATCGCCATCTTCTGGAAGGAGTACTCGATAGCAGAGACCAATCTCTTGAGCCAGATAAGATCATAATGAGCAAGAAACTTCTGTCTTAAGAATTTTAACCTTGTTGCAATCTTAAAGAATACAAACTTAAGACCTATGATTAAACTGAAAGAAATTCGAGTCATCTCATCTAGACAACAAGTTTATGTATGCATATGTTTGATATAAATTCATGTATTTTTTAATTTAGAGTACCCTAGATATATTGTTGCAATTTAATTTGTTGTTGAGGGTACAGTGAAACATTATGGATGGTGGTTTGGAATTAA
Protein sequence

>MS.gene003123.t1

MAESDNESAGCREQDRFLPIANVSRIMKKALPANAKISKEAKETVQECVSEFISFITGEASDKCQKEKRKTINGYSETLWMVVWN