AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene93866

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene93866.t1 MTR_1g104937 96.429 112 4 0 1 112 1 112 5.91e-75 217
MS.gene93866.t1 MTR_1g104940 63.000 100 35 1 1 98 1 100 1.14e-39 128
MS.gene93866.t1 MTR_1g104960 54.955 111 47 1 5 112 6 116 1.62e-32 112
MS.gene93866.t1 MTR_1g104960 59.459 74 30 0 13 86 100 173 1.89e-24 91.7
MS.gene93866.t1 MTR_1g104980 61.765 68 26 0 14 81 1 68 1.92e-24 91.7
MS.gene93866.t1 MTR_1g104980 52.688 93 39 2 14 105 72 160 1.66e-22 86.7
MS.gene93866.t1 MTR_1g105960 47.436 78 41 0 13 90 2 79 1.09e-18 75.1
MS.gene93866.t1 MTR_8g062700 48.718 78 40 0 10 87 40 117 3.09e-18 79.0
MS.gene93866.t1 MTR_8g062700 48.718 78 40 0 10 87 40 117 3.12e-18 79.0
MS.gene93866.t1 MTR_1g104950 59.322 59 22 1 35 91 1 59 1.24e-17 71.6
MS.gene93866.t1 MTR_5g036670 42.500 80 46 0 10 89 41 120 1.55e-17 77.0
MS.gene93866.t1 MTR_6g008970 47.436 78 41 0 10 87 61 138 2.57e-17 76.3
MS.gene93866.t1 MTR_3g006105 50.602 83 40 1 10 91 6 88 3.20e-17 73.2
MS.gene93866.t1 MTR_6g008995 43.023 86 48 1 12 97 37 121 5.09e-16 72.4
MS.gene93866.t1 MTR_3g006185 51.613 93 40 2 10 97 6 98 7.71e-16 69.3
MS.gene93866.t1 MTR_1g105955 50.000 72 36 0 13 84 17 88 7.92e-16 69.7
MS.gene93866.t1 MTR_1g105955 47.826 69 36 0 12 80 95 163 8.36e-12 58.9
MS.gene93866.t1 MTR_3g006125 53.333 75 34 1 10 83 87 161 8.13e-16 70.9
MS.gene93866.t1 MTR_3g006125 43.421 76 42 1 12 86 180 255 7.03e-11 57.4
MS.gene93866.t1 MTR_1g105010 48.718 78 37 1 12 89 16 90 3.13e-15 66.6
MS.gene93866.t1 MTR_7g013380 43.038 79 43 1 5 81 6 84 1.69e-14 67.8
MS.gene93866.t1 MTR_7g013380 42.308 78 43 1 12 87 185 262 3.17e-11 58.5
MS.gene93866.t1 MTR_4g133300 39.394 99 60 0 12 110 89 187 5.02e-14 65.9
MS.gene93866.t1 MTR_4g133300 44.286 70 39 0 15 84 175 244 1.22e-11 59.3
MS.gene93866.t1 MTR_4g133470 40.000 100 58 2 12 110 89 187 4.66e-13 63.2
MS.gene93866.t1 MTR_4g133470 44.286 70 39 0 15 84 175 244 1.17e-11 59.7
MS.gene93866.t1 MTR_3g006150 41.379 87 48 1 11 97 7 90 1.78e-12 60.5
MS.gene93866.t1 MTR_3g006150 50.000 66 32 1 10 74 88 153 1.86e-12 60.5
MS.gene93866.t1 MTR_8g062350 42.254 71 41 0 12 82 14 84 3.56e-12 60.5
MS.gene93866.t1 MTR_3g006065 45.000 80 41 2 10 86 88 167 7.80e-12 59.3
MS.gene93866.t1 MTR_7g089490 37.662 77 48 0 4 80 8 84 9.51e-12 57.8
MS.gene93866.t1 MTR_3g006010 44.000 75 41 1 10 83 6 80 3.83e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene93866.t1 AT3G01320 45.745 94 49 1 5 96 48 141 8.45e-19 80.9
MS.gene93866.t1 AT3G01320 45.745 94 49 1 5 96 48 141 9.05e-19 80.5
MS.gene93866.t1 AT5G15020 48.684 76 37 1 12 87 52 125 9.87e-16 72.0
MS.gene93866.t1 AT5G15020 48.684 76 37 1 12 87 52 125 1.03e-15 72.0
MS.gene93866.t1 AT1G70060 44.872 78 43 0 10 87 12 89 1.36e-15 71.6
MS.gene93866.t1 AT1G70060 44.872 78 43 0 10 87 12 89 1.36e-15 71.6
MS.gene93866.t1 AT1G24190 44.737 76 42 0 10 85 12 87 4.54e-15 70.1
MS.gene93866.t1 AT1G24190 44.737 76 42 0 10 85 12 87 4.90e-15 70.1
MS.gene93866.t1 AT1G24190 44.737 76 42 0 10 85 12 87 5.15e-15 70.1
MS.gene93866.t1 AT5G15040 46.753 77 39 1 10 86 1 75 1.70e-14 63.9
MS.gene93866.t1 AT5G15040 46.753 77 39 1 10 86 1 75 1.70e-14 63.9
MS.gene93866.t1 AT5G15040 46.753 77 39 1 10 86 1 75 1.70e-14 63.9
MS.gene93866.t1 AT5G15025 45.455 77 40 1 12 88 47 121 1.77e-14 64.7
MS.gene93866.t1 AT1G24200 47.143 70 37 0 11 80 13 82 2.72e-14 65.9
MS.gene93866.t1 AT1G27220 42.466 73 42 0 8 80 10 82 3.40e-14 65.5
MS.gene93866.t1 AT1G23810 38.636 88 53 1 5 92 102 188 2.41e-13 63.9
MS.gene93866.t1 AT1G24250 39.773 88 52 1 5 92 113 199 1.94e-12 61.6
MS.gene93866.t1 AT1G24230 51.515 66 31 1 10 74 12 77 1.95e-12 61.6
MS.gene93866.t1 AT1G24230 38.571 70 43 0 15 84 89 158 6.59e-12 60.1
MS.gene93866.t1 AT1G59890 37.179 78 49 0 12 89 45 122 2.07e-12 62.4
MS.gene93866.t1 AT1G59890 37.179 78 49 0 12 89 45 122 2.13e-12 62.4
MS.gene93866.t1 AT1G59890 37.179 78 49 0 12 89 45 122 2.20e-12 62.4
MS.gene93866.t1 AT1G59890 38.158 76 47 0 12 87 45 120 2.24e-12 62.4
MS.gene93866.t1 AT5G35610 42.500 80 43 1 20 99 18 94 4.58e-12 59.3
MS.gene93866.t1 AT1G70030 39.560 91 53 1 12 102 22 110 6.77e-12 58.2
MS.gene93866.t1 AT1G70030 39.130 92 54 1 12 103 22 111 1.19e-11 57.8
MS.gene93866.t1 AT1G24210 40.625 64 38 0 12 75 14 77 1.69e-11 57.8
MS.gene93866.t1 AT1G70030 39.130 92 54 1 12 103 11 100 2.00e-11 57.8
MS.gene93866.t1 AT1G27260 37.209 86 53 1 7 92 88 172 2.34e-11 58.5
MS.gene93866.t1 AT1G27250 39.706 68 41 0 12 79 21 88 2.92e-11 56.6
MS.gene93866.t1 AT1G10450 36.047 86 54 1 12 97 84 168 4.60e-11 58.5
MS.gene93866.t1 AT1G10450 36.047 86 54 1 12 97 33 117 6.39e-11 58.2
MS.gene93866.t1 AT1G10450 36.047 86 54 1 12 97 33 117 6.39e-11 58.2
MS.gene93866.t1 AT1G27280 43.478 69 39 0 7 75 76 144 8.68e-11 57.0

Find 18 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGACACTGCTTCACCAATCT+TGG 0.362408 1.2:-77872826 None:intergenic
GAAAATTCTAGATGATTTCT+CGG 0.377556 1.2:+77872908 MS.gene93866:CDS
TGAAGCAGTGTCGTTTGTTA+TGG 0.413384 1.2:+77872836 MS.gene93866:CDS
TAAAACATGTGTTTCAAGAT+AGG 0.427626 1.2:+77872862 MS.gene93866:CDS
AGCTGCTCGATCAATTCTTT+CGG 0.448838 1.2:-77872931 None:intergenic
TATTGTTGCTGATCATCAAA+TGG 0.491825 1.2:-77873119 None:intergenic
CACAGAGTAGATGCCAAGAT+TGG 0.508208 1.2:+77872813 MS.gene93866:CDS
TTCAACATCTTCTTGCCACC+AGG 0.516818 1.2:+77873008 MS.gene93866:CDS
AACATGTGTTTCAAGATAGG+AGG 0.520327 1.2:+77872865 MS.gene93866:CDS
GAGTTGTTAAAAGATCATAA+AGG 0.526893 1.2:+77872972 MS.gene93866:CDS
ACAAGAAATCTCACTTACAT+TGG 0.536387 1.2:+77873031 MS.gene93866:CDS
GATCGAGCAGCTGTGAAAGA+AGG 0.542586 1.2:+77872942 MS.gene93866:CDS
GTAAGTGAGATTTCTTGTCC+TGG 0.568387 1.2:-77873026 None:intergenic
ACATGTGTTTCAAGATAGGA+GGG 0.571664 1.2:+77872866 MS.gene93866:CDS
GATGATGAACAACAAGGTGA+TGG 0.587348 1.2:+77873056 MS.gene93866:CDS
AGCTGTGAAAGAAGGAATGA+CGG 0.588334 1.2:+77872950 MS.gene93866:CDS
AGTGAGATTTCTTGTCCTGG+TGG 0.701974 1.2:-77873023 None:intergenic
TTGGATGATGATGAACAACA+AGG 0.780029 1.2:+77873050 MS.gene93866:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GAAAATTCTAGATGATTTCT+CGG + chr1.2:77872908-77872927 MS.gene93866:CDS 25.0%
! GAGTTGTTAAAAGATCATAA+AGG + chr1.2:77872972-77872991 MS.gene93866:CDS 25.0%
! TAAAACATGTGTTTCAAGAT+AGG + chr1.2:77872862-77872881 MS.gene93866:CDS 25.0%
ACAAGAAATCTCACTTACAT+TGG + chr1.2:77873031-77873050 MS.gene93866:CDS 30.0%
TATTGTTGCTGATCATCAAA+TGG - chr1.2:77873122-77873141 None:intergenic 30.0%
AACATGTGTTTCAAGATAGG+AGG + chr1.2:77872865-77872884 MS.gene93866:CDS 35.0%
ACATGTGTTTCAAGATAGGA+GGG + chr1.2:77872866-77872885 MS.gene93866:CDS 35.0%
! TTGGATGATGATGAACAACA+AGG + chr1.2:77873050-77873069 MS.gene93866:CDS 35.0%
AGCTGCTCGATCAATTCTTT+CGG - chr1.2:77872934-77872953 None:intergenic 40.0%
AGCTGTGAAAGAAGGAATGA+CGG + chr1.2:77872950-77872969 MS.gene93866:CDS 40.0%
GATGATGAACAACAAGGTGA+TGG + chr1.2:77873056-77873075 MS.gene93866:CDS 40.0%
GTAAGTGAGATTTCTTGTCC+TGG - chr1.2:77873029-77873048 None:intergenic 40.0%
!! TGAAGCAGTGTCGTTTGTTA+TGG + chr1.2:77872836-77872855 MS.gene93866:CDS 40.0%
AGTGAGATTTCTTGTCCTGG+TGG - chr1.2:77873026-77873045 None:intergenic 45.0%
CACAGAGTAGATGCCAAGAT+TGG + chr1.2:77872813-77872832 MS.gene93866:CDS 45.0%
TTCAACATCTTCTTGCCACC+AGG + chr1.2:77873008-77873027 MS.gene93866:CDS 45.0%
CGACACTGCTTCACCAATCT+TGG - chr1.2:77872829-77872848 None:intergenic 50.0%
GATCGAGCAGCTGTGAAAGA+AGG + chr1.2:77872942-77872961 MS.gene93866:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 77872804 77873142 77872804 ID=MS.gene93866
chr1.2 mRNA 77872804 77873142 77872804 ID=MS.gene93866.t1;Parent=MS.gene93866
chr1.2 exon 77872804 77873142 77872804 ID=MS.gene93866.t1.exon1;Parent=MS.gene93866.t1
chr1.2 CDS 77872804 77873142 77872804 ID=cds.MS.gene93866.t1;Parent=MS.gene93866.t1
Gene Sequence

>MS.gene93866

ATGAGGAGACACAGAGTAGATGCCAAGATTGGTGAAGCAGTGTCGTTTGTTATGGAAGTAAAACATGTGTTTCAAGATAGGAGGGAGAAGTATGACGAGTTTTTGAAAATTCTAGATGATTTCTCGGCCGAAAGAATTGATCGAGCAGCTGTGAAAGAAGGAATGACGGAGTTGTTAAAAGATCATAAAGGTTTAATTTCAAGATTCAACATCTTCTTGCCACCAGGACAAGAAATCTCACTTACATTGGATGATGATGAACAACAAGGTGATGGATTAGCATTCGAAGATGAACAGAAATATGAAATCTCACTTCCATTTGATGATCAGCAACAATAA
Protein sequence

>MS.gene93866.t1

MRRHRVDAKIGEAVSFVMEVKHVFQDRREKYDEFLKILDDFSAERIDRAAVKEGMTELLKDHKGLISRFNIFLPPGQEISLTLDDDEQQGDGLAFEDEQKYEISLPFDDQQQ