AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene61259

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene61259.t1 MTR_4g099230 89.744 156 16 0 1 156 1 156 3.74e-104 295
MS.gene61259.t1 MTR_5g085390 64.925 134 42 1 2 130 9 142 1.22e-52 167
MS.gene61259.t1 MTR_6g011200 47.849 186 55 3 2 146 9 193 1.76e-48 157
MS.gene61259.t1 MTR_6g011250 50.993 151 73 1 2 151 9 159 2.05e-48 154
MS.gene61259.t1 MTR_6g011230 50.993 151 64 3 2 143 11 160 2.79e-46 150
MS.gene61259.t1 MTR_6g004550 67.059 85 25 1 30 111 1 85 2.70e-34 117
MS.gene61259.t1 MTR_8g017090 53.398 103 47 1 2 104 12 113 4.67e-30 110
MS.gene61259.t1 MTR_4g107450 49.057 106 53 1 2 107 10 114 9.79e-30 110
MS.gene61259.t1 MTR_2g100020 48.113 106 54 1 2 107 19 123 2.88e-28 105
MS.gene61259.t1 MTR_8g040900 52.500 80 37 1 3 82 8 86 9.22e-27 100
MS.gene61259.t1 MTR_4g105170 37.795 127 78 1 3 129 12 137 2.95e-26 98.2
MS.gene61259.t1 MTR_4g083680 33.571 140 91 2 3 141 16 154 5.92e-26 97.1
MS.gene61259.t1 MTR_5g017950 39.394 132 75 3 3 130 9 139 1.09e-25 99.8
MS.gene61259.t1 MTR_3g077240 44.211 95 52 1 3 97 11 104 2.44e-25 96.3
MS.gene61259.t1 MTR_7g033800 43.158 95 53 1 3 97 12 105 2.86e-25 95.5
MS.gene61259.t1 MTR_2g068760 37.838 111 68 1 3 113 14 123 3.45e-25 94.7
MS.gene61259.t1 MTR_7g028905 37.963 108 66 1 3 110 6 112 5.22e-25 93.2
MS.gene61259.t1 MTR_3g073690 43.137 102 57 1 3 104 10 110 7.76e-25 95.1
MS.gene61259.t1 MTR_6g005070 43.158 95 53 1 3 97 10 103 1.05e-23 90.5
MS.gene61259.t1 MTR_8g079660 44.118 102 56 1 3 104 9 109 5.27e-23 91.7
MS.gene61259.t1 MTR_6g005080 41.053 95 55 1 3 97 11 104 5.88e-23 88.6
MS.gene61259.t1 MTR_3g452660 42.157 102 58 1 3 104 8 108 5.91e-23 92.0
MS.gene61259.t1 MTR_3g031660 47.500 80 41 1 3 82 8 86 8.62e-23 89.0
MS.gene61259.t1 MTR_2g093310 37.349 166 72 7 3 143 34 192 9.38e-23 89.7
MS.gene61259.t1 MTR_5g083010 35.385 130 75 3 2 127 11 135 1.05e-22 89.0
MS.gene61259.t1 MTR_8g079620 42.157 102 58 1 3 104 9 109 4.37e-22 88.6
MS.gene61259.t1 MTR_4g060950 45.263 95 46 3 3 96 25 114 5.09e-22 87.4
MS.gene61259.t1 MTR_5g083230 45.000 80 43 1 3 82 7 85 5.56e-22 86.7
MS.gene61259.t1 MTR_5g083960 37.755 98 60 1 3 100 40 136 1.32e-21 86.7
MS.gene61259.t1 MTR_1g095850 38.938 113 66 2 3 113 73 184 2.24e-21 86.7
MS.gene61259.t1 MTR_5g093010 34.314 102 66 1 3 104 6 106 8.97e-21 83.2
MS.gene61259.t1 MTR_5g075020 35.246 122 78 1 3 124 44 164 2.97e-20 84.0
MS.gene61259.t1 MTR_5g075020 35.246 122 78 1 3 124 48 168 4.06e-20 83.6
MS.gene61259.t1 MTR_3g071420 38.144 97 55 2 2 98 14 105 9.72e-20 81.3
MS.gene61259.t1 MTR_3g071590 43.750 80 44 1 3 82 9 87 1.21e-19 80.5
MS.gene61259.t1 MTR_3g094690 38.462 104 62 2 3 105 48 150 1.36e-19 82.0
MS.gene61259.t1 MTR_8g036105 37.391 115 70 2 3 116 19 132 4.26e-19 80.5
MS.gene61259.t1 MTR_8g036085 37.864 103 62 2 3 104 24 125 8.52e-19 80.1
MS.gene61259.t1 MTR_3g094690 37.500 104 62 2 3 105 48 149 1.12e-18 79.7
MS.gene61259.t1 MTR_7g096530 37.500 104 63 2 3 105 15 117 1.36e-18 79.3
MS.gene61259.t1 MTR_6g027710 37.255 102 62 2 3 103 41 141 3.22e-17 75.9
MS.gene61259.t1 MTR_8g079580 39.216 102 60 2 3 103 9 109 8.72e-17 74.7
MS.gene61259.t1 MTR_7g074990 36.000 100 62 2 3 101 21 119 5.37e-16 72.8
MS.gene61259.t1 MTR_4g088035 36.667 90 56 1 2 91 6 94 7.27e-16 72.8
MS.gene61259.t1 MTR_6g027700 35.354 99 62 2 3 100 8 105 2.01e-15 70.5
MS.gene61259.t1 MTR_1g070220 35.354 99 62 2 3 100 16 113 3.42e-15 70.1
MS.gene61259.t1 MTR_5g080470 30.769 104 70 2 2 104 7 109 1.06e-14 68.6
MS.gene61259.t1 MTR_8g009730 29.452 146 96 4 1 140 9 153 2.28e-14 67.8
MS.gene61259.t1 MTR_1g070205 31.313 99 66 2 3 100 13 110 4.76e-12 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene61259.t1 AT3G47870 51.961 102 48 1 2 103 36 136 7.25e-30 110
MS.gene61259.t1 AT3G13850 49.515 103 51 1 2 104 36 137 1.11e-27 103
MS.gene61259.t1 AT5G63090 42.718 103 58 1 3 105 12 113 3.06e-25 95.9
MS.gene61259.t1 AT5G63090 42.718 103 58 1 3 105 12 113 3.06e-25 95.9
MS.gene61259.t1 AT5G63090 42.718 103 58 1 3 105 12 113 3.06e-25 95.9
MS.gene61259.t1 AT5G63090 42.718 103 58 1 3 105 12 113 3.06e-25 95.9
MS.gene61259.t1 AT5G66870 41.176 102 59 1 3 104 8 108 7.24e-24 95.1
MS.gene61259.t1 AT1G31320 44.828 87 47 1 3 89 14 99 7.72e-24 91.7
MS.gene61259.t1 AT1G65620 47.500 80 41 1 3 82 10 88 8.24e-24 92.4
MS.gene61259.t1 AT1G65620 47.500 80 41 1 3 82 10 88 8.24e-24 92.4
MS.gene61259.t1 AT1G65620 47.500 80 41 1 3 82 10 88 8.24e-24 92.4
MS.gene61259.t1 AT1G65620 47.500 80 41 1 3 82 10 88 8.24e-24 92.4
MS.gene61259.t1 AT1G65620 47.500 80 41 1 3 82 10 88 8.24e-24 92.4
MS.gene61259.t1 AT1G72980 36.667 150 88 3 2 151 13 155 1.30e-23 92.4
MS.gene61259.t1 AT3G27650 42.857 98 52 2 3 97 40 136 2.15e-23 90.1
MS.gene61259.t1 AT3G26660 39.216 102 61 1 3 104 6 106 8.04e-23 87.8
MS.gene61259.t1 AT3G26620 39.216 102 61 1 3 104 6 106 1.11e-22 87.4
MS.gene61259.t1 AT1G07900 44.681 94 47 2 3 96 34 122 2.50e-22 88.2
MS.gene61259.t1 AT2G30130 38.136 118 69 3 3 120 9 122 7.35e-22 87.0
MS.gene61259.t1 AT3G11090 40.206 97 53 2 2 98 11 102 2.54e-21 85.1
MS.gene61259.t1 AT2G28500 43.158 95 49 2 3 97 56 145 5.85e-21 85.9
MS.gene61259.t1 AT1G16530 40.741 108 55 3 3 102 15 121 8.54e-21 83.6
MS.gene61259.t1 AT2G23660 42.553 94 53 1 3 96 6 98 9.19e-21 86.7
MS.gene61259.t1 AT2G23660 42.553 94 53 1 3 96 6 98 9.19e-21 86.7
MS.gene61259.t1 AT2G23660 42.553 94 53 1 3 96 6 98 9.19e-21 86.7
MS.gene61259.t1 AT2G40470 38.318 107 65 1 3 109 21 126 1.93e-20 83.6
MS.gene61259.t1 AT2G30340 35.294 119 76 1 3 121 54 171 3.16e-20 84.3
MS.gene61259.t1 AT2G40470 38.318 107 65 1 3 109 46 151 3.48e-20 83.6
MS.gene61259.t1 AT2G30340 35.294 119 76 1 3 121 53 170 3.49e-20 84.3
MS.gene61259.t1 AT3G50510 34.746 118 75 2 3 119 13 129 1.12e-19 81.6
MS.gene61259.t1 AT3G50510 34.746 118 75 2 3 119 13 129 1.12e-19 81.6
MS.gene61259.t1 AT5G35900 36.275 102 64 1 3 104 6 106 2.42e-19 80.9
MS.gene61259.t1 AT1G06280 39.326 89 53 1 2 90 24 111 5.86e-18 77.4
MS.gene61259.t1 AT5G15060 44.595 74 40 1 3 75 18 91 1.39e-17 74.7
MS.gene61259.t1 AT4G00220 36.634 101 62 2 5 104 20 119 1.64e-16 73.9
MS.gene61259.t1 AT2G45420 35.644 101 63 2 5 104 40 139 4.71e-16 73.2
MS.gene61259.t1 AT2G19820 37.363 91 55 1 3 91 13 103 8.38e-16 69.7
MS.gene61259.t1 AT5G06080 30.263 152 92 5 2 148 7 149 2.10e-15 70.1
MS.gene61259.t1 AT3G03760 36.275 102 63 2 3 103 52 152 2.50e-15 71.2
MS.gene61259.t1 AT2G42430 37.500 88 53 2 3 89 16 102 3.24e-15 70.9
MS.gene61259.t1 AT4G00210 32.031 128 78 3 3 122 12 138 1.01e-14 68.9
MS.gene61259.t1 AT3G58190 31.429 140 78 4 3 139 12 136 1.13e-14 68.9
MS.gene61259.t1 AT2G45410 34.545 110 70 2 5 113 19 127 3.33e-14 67.0
MS.gene61259.t1 AT2G31310 34.091 88 56 2 3 89 8 94 4.34e-13 63.9
MS.gene61259.t1 AT2G42440 34.694 98 59 3 3 96 8 104 1.49e-12 63.5

Find 23 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGTACCAATTGGAGTATT+TGG 0.132307 8.2:+22940345 None:intergenic
TGAGCTTTGGCGAAGATTTC+TGG 0.170855 8.2:+22940627 None:intergenic
GGCGAAGATTTCTGGTTTAT+CGG 0.252911 8.2:+22940635 None:intergenic
GGTTTATCGGCTGGAAAATA+AGG 0.292366 8.2:+22940648 None:intergenic
TAAGGAGCTAAAGCGCAATT+TGG 0.321462 8.2:+22940666 None:intergenic
GCCAAAGCTCATCGTTTGTT+TGG 0.367005 8.2:-22940615 MS.gene61259:CDS
AGGGAATCTTGCACGCATTT+CGG 0.384077 8.2:+22940509 None:intergenic
GTATTCAAATTTGTACCAAT+TGG 0.401383 8.2:+22940336 None:intergenic
CGTGCAAGATTCCCTGCTAC+TGG 0.446694 8.2:-22940501 MS.gene61259:CDS
ACCAAACAAACGATGAGCTT+TGG 0.449673 8.2:+22940614 None:intergenic
GGAAAATGAGAACTAGTAGA+AGG 0.455012 8.2:+22940366 None:intergenic
TTCCCTGCTACTGGATGTCT+TGG 0.455177 8.2:-22940492 MS.gene61259:CDS
AAGATTTCTGGTTTATCGGC+TGG 0.457749 8.2:+22940639 None:intergenic
ACAAAGGAAGCACATTTGAA+TGG 0.476409 8.2:-22940297 MS.gene61259:CDS
GCACCAAGACATCCAGTAGC+AGG 0.478218 8.2:+22940489 None:intergenic
CTTTAGCATCTTCACCATGT+TGG 0.486560 8.2:+22940587 None:intergenic
CAATGGTGGTGTTGATCCAC+AGG 0.514297 8.2:-22940271 MS.gene61259:CDS
CTTGGTGCTATTCTTACATA+CGG 0.548699 8.2:-22940474 MS.gene61259:CDS
TTTGTTTGGTGTTTCCAACA+TGG 0.590911 8.2:-22940601 MS.gene61259:CDS
CACCAAGACATCCAGTAGCA+GGG 0.617241 8.2:+22940490 None:intergenic
GCACATTTGAATGGTGACAA+TGG 0.675011 8.2:-22940288 MS.gene61259:CDS
CATTTGAATGGTGACAATGG+TGG 0.751872 8.2:-22940285 MS.gene61259:CDS
AATGGTGGTGTTGATCCACA+GGG 0.779286 8.2:-22940270 MS.gene61259:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATTTGAATACAAGTTTTA+TGG - chr8.2:22940643-22940662 MS.gene61259:CDS 15.0%
! GTATTCAAATTTGTACCAAT+TGG + chr8.2:22940635-22940654 None:intergenic 25.0%
!!! AAGTTTTATGGATTCAACAA+AGG - chr8.2:22940655-22940674 MS.gene61259:CDS 25.0%
! CATTTTCCAAATACTCCAAT+TGG - chr8.2:22940617-22940636 MS.gene61259:CDS 30.0%
! TTTGTACCAATTGGAGTATT+TGG + chr8.2:22940626-22940645 None:intergenic 30.0%
GGAAAATGAGAACTAGTAGA+AGG + chr8.2:22940605-22940624 None:intergenic 35.0%
! ACAAAGGAAGCACATTTGAA+TGG - chr8.2:22940671-22940690 MS.gene61259:CDS 35.0%
!! CTTGGTGCTATTCTTACATA+CGG - chr8.2:22940494-22940513 MS.gene61259:CDS 35.0%
!! TTTGTTTGGTGTTTCCAACA+TGG - chr8.2:22940367-22940386 MS.gene61259:CDS 35.0%
ACCAAACAAACGATGAGCTT+TGG + chr8.2:22940357-22940376 None:intergenic 40.0%
CATTTGAATGGTGACAATGG+TGG - chr8.2:22940683-22940702 MS.gene61259:CDS 40.0%
CTTTAGCATCTTCACCATGT+TGG + chr8.2:22940384-22940403 None:intergenic 40.0%
GCACATTTGAATGGTGACAA+TGG - chr8.2:22940680-22940699 MS.gene61259:CDS 40.0%
TAAGGAGCTAAAGCGCAATT+TGG + chr8.2:22940305-22940324 None:intergenic 40.0%
! GGTTTATCGGCTGGAAAATA+AGG + chr8.2:22940323-22940342 None:intergenic 40.0%
!! AAGATTTCTGGTTTATCGGC+TGG + chr8.2:22940332-22940351 None:intergenic 40.0%
!! GGCGAAGATTTCTGGTTTAT+CGG + chr8.2:22940336-22940355 None:intergenic 40.0%
AGGGAATCTTGCACGCATTT+CGG + chr8.2:22940462-22940481 None:intergenic 45.0%
GCCAAAGCTCATCGTTTGTT+TGG - chr8.2:22940353-22940372 MS.gene61259:CDS 45.0%
! TGAGCTTTGGCGAAGATTTC+TGG + chr8.2:22940344-22940363 None:intergenic 45.0%
!! AATGGTGGTGTTGATCCACA+GGG - chr8.2:22940698-22940717 MS.gene61259:CDS 45.0%
CACCAAGACATCCAGTAGCA+GGG + chr8.2:22940481-22940500 None:intergenic 50.0%
TTCCCTGCTACTGGATGTCT+TGG - chr8.2:22940476-22940495 MS.gene61259:CDS 50.0%
!! CAATGGTGGTGTTGATCCAC+AGG - chr8.2:22940697-22940716 MS.gene61259:CDS 50.0%
CGTGCAAGATTCCCTGCTAC+TGG - chr8.2:22940467-22940486 MS.gene61259:CDS 55.0%
GCACCAAGACATCCAGTAGC+AGG + chr8.2:22940482-22940501 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 22940260 22940730 22940260 ID=MS.gene61259
chr8.2 mRNA 22940260 22940730 22940260 ID=MS.gene61259.t1;Parent=MS.gene61259
chr8.2 exon 22940260 22940730 22940260 ID=MS.gene61259.t1.exon1;Parent=MS.gene61259.t1
chr8.2 CDS 22940260 22940730 22940260 ID=cds.MS.gene61259.t1;Parent=MS.gene61259.t1
Gene Sequence

>MS.gene61259

ATGGCTTGTGCAGCATGCAAATATCAAAGAAGAAAGTGTTCTCCAAATTGCGCTTTAGCTCCTTATTTTCCAGCCGATAAACCAGAAATCTTCGCCAAAGCTCATCGTTTGTTTGGTGTTTCCAACATGGTGAAGATGCTAAAGAATATTGATGATGATCATCTAAAAGATGAAGCAATGAAATCAATTATCTTTGAGTCCGAAATGCGTGCAAGATTCCCTGCTACTGGATGTCTTGGTGCTATTCTTACATACGGAGATGAGTTAAAGAAGTCTCTTGAAGAGTTAGATCATGTAAGAAATCTACTAGCTTATTGTAAACAACATAATCTTTCTTCTGCACCTTCTACTAGTTCTCATTTTCCAAATACTCCAATTGGTACAAATTTGAATACAAGTTTTATGGATTCAACAAAGGAAGCACATTTGAATGGTGACAATGGTGGTGTTGATCCACAGGGAAAACCTTAA
Protein sequence

>MS.gene61259.t1

MACAACKYQRRKCSPNCALAPYFPADKPEIFAKAHRLFGVSNMVKMLKNIDDDHLKDEAMKSIIFESEMRARFPATGCLGAILTYGDELKKSLEELDHVRNLLAYCKQHNLSSAPSTSSHFPNTPIGTNLNTSFMDSTKEAHLNGDNGGVDPQGKP