AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene88651

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene88651.t1 MTR_1g077790 96.894 161 5 0 1 161 1 161 6.62e-115 323
MS.gene88651.t1 MTR_6g022170 40.351 114 65 2 28 141 33 143 1.18e-25 96.3
MS.gene88651.t1 MTR_4g111640 37.302 126 70 4 26 150 29 146 2.27e-23 90.9
MS.gene88651.t1 MTR_1g104800 34.177 158 84 3 9 152 8 159 3.12e-23 90.5
MS.gene88651.t1 MTR_8g086360 37.762 143 80 4 13 153 7 142 9.81e-22 87.0
MS.gene88651.t1 MTR_1g014120 38.776 98 59 1 32 129 29 125 1.89e-21 85.9
MS.gene88651.t1 MTR_4g077787 35.385 130 78 4 26 154 29 153 3.18e-21 85.5
MS.gene88651.t1 MTR_2g101300 32.895 152 92 3 6 152 7 153 1.56e-20 84.0
MS.gene88651.t1 MTR_3g105930 33.858 127 78 2 32 153 31 156 4.26e-19 79.7
MS.gene88651.t1 MTR_5g006040 32.877 146 93 3 11 155 7 148 4.69e-19 79.7
MS.gene88651.t1 MTR_2g090580 36.538 104 63 1 26 129 24 124 5.91e-19 79.7
MS.gene88651.t1 MTR_4g078410 35.200 125 76 3 28 150 24 145 7.55e-19 79.3
MS.gene88651.t1 MTR_4g112310 38.462 104 56 3 47 150 1 96 8.10e-19 77.8
MS.gene88651.t1 MTR_2g090575 35.246 122 73 2 8 129 7 122 9.42e-19 81.6
MS.gene88651.t1 MTR_4g081100 35.514 107 68 1 23 129 26 131 1.20e-18 79.7
MS.gene88651.t1 MTR_2g083250 36.190 105 66 1 26 129 23 127 2.79e-17 76.6
MS.gene88651.t1 MTR_8g095020 38.655 119 68 3 27 145 23 136 5.03e-17 76.6
MS.gene88651.t1 MTR_8g463180 28.689 122 84 1 8 129 3 121 1.65e-16 75.1
MS.gene88651.t1 MTR_2g088990 32.836 134 75 5 32 156 29 156 4.22e-16 72.8
MS.gene88651.t1 MTR_2g079030 33.636 110 68 2 27 135 23 128 9.06e-16 73.9
MS.gene88651.t1 MTR_8g095013 33.051 118 76 2 13 129 8 123 1.05e-15 72.8
MS.gene88651.t1 MTR_6g080660 28.226 124 82 3 7 129 5 122 1.90e-14 68.2
MS.gene88651.t1 MTR_8g094990 33.571 140 85 4 13 151 8 140 4.87e-14 68.2
MS.gene88651.t1 MTR_4g114870 29.371 143 90 3 13 150 8 144 4.91e-14 68.6
MS.gene88651.t1 MTR_4g114870 32.673 101 67 1 29 129 191 290 7.03e-13 65.5
MS.gene88651.t1 MTR_1g090420 33.784 148 87 4 8 155 10 146 7.52e-14 66.6
MS.gene88651.t1 MTR_8g099220 33.333 99 64 1 31 129 31 127 1.22e-13 64.3
MS.gene88651.t1 MTR_4g130780 29.126 103 71 2 28 129 28 129 7.48e-13 63.5
MS.gene88651.t1 MTR_4g124280 31.429 105 71 1 25 129 21 124 1.02e-12 63.9
MS.gene88651.t1 MTR_1g090190 33.077 130 76 4 29 153 23 146 1.37e-12 62.8
MS.gene88651.t1 MTR_3g092170 28.571 154 101 4 13 160 8 158 5.59e-12 62.4
MS.gene88651.t1 MTR_6g023760 33.028 109 66 4 23 130 20 122 8.70e-12 60.5
MS.gene88651.t1 MTR_1g072180 35.526 76 46 1 57 129 24 99 8.84e-12 58.5
MS.gene88651.t1 MTR_3g099540 31.683 101 63 2 29 129 27 121 1.65e-11 58.9
MS.gene88651.t1 MTR_8g007035 32.381 105 65 2 25 129 20 118 1.90e-11 60.1
MS.gene88651.t1 MTR_8g007020 32.479 117 69 3 13 129 12 118 4.31e-11 58.9
MS.gene88651.t1 MTR_1g112700 27.344 128 87 2 8 134 12 134 4.86e-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.gene88651.t1 AT1G64640 55.625 160 59 4 9 161 6 160 2.93e-54 170
MS.gene88651.t1 AT3G20570 38.793 116 69 1 14 129 15 128 5.84e-27 100
MS.gene88651.t1 AT1G79800 38.843 121 71 2 28 147 33 151 2.14e-22 88.6
MS.gene88651.t1 AT1G48940 38.318 107 63 2 24 129 21 125 6.65e-22 87.0
MS.gene88651.t1 AT4G31840 38.158 152 83 6 11 153 4 153 9.12e-21 84.0
MS.gene88651.t1 AT3G18590 35.246 122 75 3 9 129 8 126 1.14e-20 84.0
MS.gene88651.t1 AT2G25060 39.000 100 57 2 30 129 36 131 1.63e-20 83.6
MS.gene88651.t1 AT5G57920 37.755 98 60 1 32 129 27 123 2.78e-20 82.8
MS.gene88651.t1 AT5G57920 37.755 98 60 1 32 129 26 122 3.86e-20 82.4
MS.gene88651.t1 AT5G57920 37.755 98 60 1 32 129 59 155 1.24e-19 82.0
MS.gene88651.t1 AT4G27520 32.432 148 95 3 12 158 14 157 3.39e-19 82.8
MS.gene88651.t1 AT4G28365 31.081 148 92 5 13 156 9 150 3.89e-19 80.5
MS.gene88651.t1 AT5G14345 32.061 131 83 2 14 144 5 129 4.61e-19 79.0
MS.gene88651.t1 AT4G32490 33.333 108 69 1 27 134 29 133 1.71e-18 79.3
MS.gene88651.t1 AT5G53870 33.333 156 94 5 8 160 12 160 1.84e-18 80.9
MS.gene88651.t1 AT5G25090 31.967 122 81 2 9 129 6 126 1.85e-18 78.2
MS.gene88651.t1 AT5G53870 33.333 156 94 5 8 160 12 160 2.23e-18 80.9
MS.gene88651.t1 AT2G32300 28.289 152 96 3 1 152 1 139 6.73e-18 78.2
MS.gene88651.t1 AT2G32300 28.025 157 105 2 1 157 31 179 1.02e-17 78.2
MS.gene88651.t1 AT4G30590 35.714 98 62 1 32 129 32 128 1.95e-17 75.9
MS.gene88651.t1 AT2G23990 37.374 99 60 2 32 129 31 128 2.74e-17 75.9
MS.gene88651.t1 AT5G26330 34.014 147 74 3 29 155 24 167 4.27e-17 74.7
MS.gene88651.t1 AT2G31050 32.857 140 87 4 5 142 6 140 3.94e-13 64.7
MS.gene88651.t1 AT1G45063 33.333 108 68 2 29 135 149 253 1.46e-12 63.9
MS.gene88651.t1 AT5G07475 30.400 125 72 4 31 155 32 141 1.47e-12 62.8
MS.gene88651.t1 AT2G23990 30.508 118 61 3 32 129 31 147 1.51e-12 63.5
MS.gene88651.t1 AT1G45063 33.333 108 68 2 29 135 149 253 1.71e-12 64.3
MS.gene88651.t1 AT2G26720 27.778 144 98 2 1 142 1 140 5.42e-12 61.6
MS.gene88651.t1 AT3G60270 31.132 106 67 2 24 129 21 120 2.61e-11 59.3
MS.gene88651.t1 AT3G17675 30.000 100 65 1 31 130 34 128 4.22e-11 57.8

Find 35 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGGGTGAAGTTGTGAAATT+TGG 0.223732 1.2:+62844187 None:intergenic
CATATATCTGTTGGAGGAAT+TGG 0.263666 1.2:-62843844 MS.gene88651:CDS
CCATTGTTCATAAACAATAT+TGG 0.281321 1.2:+62843952 None:intergenic
AAAACACTTTGGTTTGGATT+TGG 0.318460 1.2:+62844288 None:intergenic
CCCTCTTCACAAACAGTGTT+TGG 0.328717 1.2:-62843769 MS.gene88651:CDS
TACTTCACAAGTGGAGAAAA+TGG 0.332320 1.2:-62843892 MS.gene88651:CDS
ATCCACAAGTCTATGCTAAA+TGG 0.353275 1.2:-62844211 MS.gene88651:CDS
CAGTCATAACAACTGGTTCT+TGG 0.354742 1.2:-62844336 MS.gene88651:CDS
TTAGATCTCCAACTTTGAAT+TGG 0.398002 1.2:+62844261 None:intergenic
GGTAGCAAAACACTTTGGTT+TGG 0.401653 1.2:+62844282 None:intergenic
AGTTGGAGATCTAAATGCTT+GGG 0.404972 1.2:-62844252 MS.gene88651:CDS
CCAAACACTGTTTGTGAAGA+GGG 0.433432 1.2:+62843769 None:intergenic
CAAAAGATTCATATATCTGT+TGG 0.454335 1.2:-62843853 MS.gene88651:CDS
AAATTTCACAACTTCACCCT+TGG 0.467456 1.2:-62844185 MS.gene88651:CDS
AAATGGCCAGTCATAACAAC+TGG 0.486950 1.2:-62844343 MS.gene88651:CDS
ATCAATGAATCTTGACTTGG+TGG 0.501009 1.2:+62844018 None:intergenic
TGTGAAGAGGGTGCAGATGC+AGG 0.517498 1.2:+62843781 None:intergenic
GACCATTTAGCATAGACTTG+TGG 0.528971 1.2:+62844209 None:intergenic
AATGTTGATGCTGAAGCTAA+TGG 0.532427 1.2:-62843820 MS.gene88651:CDS
GAATTGGTAGCAAAACACTT+TGG 0.533380 1.2:+62844277 None:intergenic
CCAATATTGTTTATGAACAA+TGG 0.534060 1.2:-62843952 MS.gene88651:CDS
GATGCAGGCAATGAAGAACT+TGG 0.536171 1.2:+62843796 None:intergenic
AAGTTGGAGATCTAAATGCT+TGG 0.539050 1.2:-62844253 MS.gene88651:CDS
TCCAAACACTGTTTGTGAAG+AGG 0.548927 1.2:+62843768 None:intergenic
AAGATTCATATATCTGTTGG+AGG 0.558686 1.2:-62843850 MS.gene88651:CDS
GACTTGTGGATTTGCTGAGG+TGG 0.563923 1.2:+62844223 None:intergenic
CAAGAACCAGTTGTTATGAC+TGG 0.565931 1.2:+62844337 None:intergenic
GGTGATTTCTACTTCACAAG+TGG 0.570982 1.2:-62843901 MS.gene88651:CDS
ACTTACAAAGTGAGTCTCCA+AGG 0.579525 1.2:+62844168 None:intergenic
TGAATCAATGAATCTTGACT+TGG 0.587776 1.2:+62844015 None:intergenic
ACTTGTGGATTTGCTGAGGT+GGG 0.610232 1.2:+62844224 None:intergenic
GTTGGAGATCTAAATGCTTG+GGG 0.615224 1.2:-62844251 MS.gene88651:CDS
TTGTTTAACATAACATCACA+TGG 0.618399 1.2:-62843922 MS.gene88651:CDS
ATAGACTTGTGGATTTGCTG+AGG 0.672234 1.2:+62844220 None:intergenic
CTTACAAAGTGAGTCTCCAA+GGG 0.672775 1.2:+62844169 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTAACACTAAAATGAAATTA+AGG + chr1.2:62843983-62844002 None:intergenic 20.0%
!! GTTGGAATATATTGTATATA+TGG + chr1.2:62843958-62843977 None:intergenic 20.0%
!! TAAAATGAAATTAAGGAAGT+TGG + chr1.2:62843976-62843995 None:intergenic 20.0%
!!! TATGAATCTTTTGATTCTTT+TGG + chr1.2:62844240-62844259 None:intergenic 20.0%
! AGTGTTACAAAACTCAAAAA+GGG - chr1.2:62843995-62844014 MS.gene88651:CDS 25.0%
! CAAAAGATTCATATATCTGT+TGG - chr1.2:62844247-62844266 MS.gene88651:CDS 25.0%
! CCAATATTGTTTATGAACAA+TGG - chr1.2:62844148-62844167 MS.gene88651:intron 25.0%
! CCATTGTTCATAAACAATAT+TGG + chr1.2:62844151-62844170 None:intergenic 25.0%
! TAGTGTTACAAAACTCAAAA+AGG - chr1.2:62843994-62844013 MS.gene88651:CDS 25.0%
! TTGTTTAACATAACATCACA+TGG - chr1.2:62844178-62844197 MS.gene88651:CDS 25.0%
AAGATTCATATATCTGTTGG+AGG - chr1.2:62844250-62844269 MS.gene88651:CDS 30.0%
TGAATCAATGAATCTTGACT+TGG + chr1.2:62844088-62844107 None:intergenic 30.0%
TTAGATCTCCAACTTTGAAT+TGG + chr1.2:62843842-62843861 None:intergenic 30.0%
! TTTTGCTACCAATTCAAAGT+TGG - chr1.2:62843831-62843850 MS.gene88651:CDS 30.0%
!! AAAACACTTTGGTTTGGATT+TGG + chr1.2:62843815-62843834 None:intergenic 30.0%
AAATTTCACAACTTCACCCT+TGG - chr1.2:62843915-62843934 MS.gene88651:CDS 35.0%
AAGGGTGAAGTTGTGAAATT+TGG + chr1.2:62843916-62843935 None:intergenic 35.0%
AAGTTGGAGATCTAAATGCT+TGG - chr1.2:62843847-62843866 MS.gene88651:CDS 35.0%
AATGTTGATGCTGAAGCTAA+TGG - chr1.2:62844280-62844299 MS.gene88651:CDS 35.0%
AGTTGGAGATCTAAATGCTT+GGG - chr1.2:62843848-62843867 MS.gene88651:CDS 35.0%
ATCCACAAGTCTATGCTAAA+TGG - chr1.2:62843889-62843908 MS.gene88651:CDS 35.0%
CATATATCTGTTGGAGGAAT+TGG - chr1.2:62844256-62844275 MS.gene88651:CDS 35.0%
TACTTCACAAGTGGAGAAAA+TGG - chr1.2:62844208-62844227 MS.gene88651:CDS 35.0%
! GAATTGGTAGCAAAACACTT+TGG + chr1.2:62843826-62843845 None:intergenic 35.0%
!! ATCAATGAATCTTGACTTGG+TGG + chr1.2:62844085-62844104 None:intergenic 35.0%
ACTTACAAAGTGAGTCTCCA+AGG + chr1.2:62843935-62843954 None:intergenic 40.0%
CAAGAACCAGTTGTTATGAC+TGG + chr1.2:62843766-62843785 None:intergenic 40.0%
CCAAACACTGTTTGTGAAGA+GGG + chr1.2:62844334-62844353 None:intergenic 40.0%
CTTACAAAGTGAGTCTCCAA+GGG + chr1.2:62843934-62843953 None:intergenic 40.0%
GACCATTTAGCATAGACTTG+TGG + chr1.2:62843894-62843913 None:intergenic 40.0%
GGTAGCAAAACACTTTGGTT+TGG + chr1.2:62843821-62843840 None:intergenic 40.0%
GGTGATTTCTACTTCACAAG+TGG - chr1.2:62844199-62844218 MS.gene88651:CDS 40.0%
GTTGGAGATCTAAATGCTTG+GGG - chr1.2:62843849-62843868 MS.gene88651:CDS 40.0%
TCCAAACACTGTTTGTGAAG+AGG + chr1.2:62844335-62844354 None:intergenic 40.0%
! CAGTCATAACAACTGGTTCT+TGG - chr1.2:62843764-62843783 MS.gene88651:CDS 40.0%
!! ATAGACTTGTGGATTTGCTG+AGG + chr1.2:62843883-62843902 None:intergenic 40.0%
CCCTCTTCACAAACAGTGTT+TGG - chr1.2:62844331-62844350 MS.gene88651:CDS 45.0%
GATGCAGGCAATGAAGAACT+TGG + chr1.2:62844307-62844326 None:intergenic 45.0%
! CAGTTGTTATGACTGGCCAT+TGG + chr1.2:62843759-62843778 None:intergenic 45.0%
!! ACTTGTGGATTTGCTGAGGT+GGG + chr1.2:62843879-62843898 None:intergenic 45.0%
!! GACTTGTGGATTTGCTGAGG+TGG + chr1.2:62843880-62843899 None:intergenic 50.0%
! TGTGAAGAGGGTGCAGATGC+AGG + chr1.2:62844322-62844341 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 62843759 62844363 62843759 ID=MS.gene88651
chr1.2 mRNA 62843759 62844363 62843759 ID=MS.gene88651.t1;Parent=MS.gene88651
chr1.2 exon 62844174 62844363 62844174 ID=MS.gene88651.t1.exon1;Parent=MS.gene88651.t1
chr1.2 CDS 62844174 62844363 62844174 ID=cds.MS.gene88651.t1;Parent=MS.gene88651.t1
chr1.2 exon 62843759 62844051 62843759 ID=MS.gene88651.t1.exon2;Parent=MS.gene88651.t1
chr1.2 CDS 62843759 62844051 62843759 ID=cds.MS.gene88651.t1;Parent=MS.gene88651.t1
Gene Sequence

>MS.gene88651

ATGGCCAGTCATAACAACTGGTTCTTGGTTTCATCTCTCTTGCTTACATTTCTCCAAATCCAAACCAAAGTGTTTTGCTACCAATTCAAAGTTGGAGATCTAAATGCTTGGGGTATACCCACCTCAGCAAATCCACAAGTCTATGCTAAATGGTCCAAATTTCACAACTTCACCCTTGGAGACTCACTTTGTAAGTCCATATATACAATATATTCCAACTTCCTTAATTTCATTTTAGTGTTACAAAACTCAAAAAGGGTGTGCATTATTAATTTCTAAGTTTATTATATTTTTGTGTATTCATATATGTAGTGTTTCTATATCCACCAAGTCAAGATTCATTGATTCAAGTAACACAAGAATCTTACAAGAGCTGCAACACTAAAGATCCAATATTGTTTATGAACAATGGTAACTCATTGTTTAACATAACATCACATGGTGATTTCTACTTCACAAGTGGAGAAAATGGTCATTGCCAAAAGAATCAAAAGATTCATATATCTGTTGGAGGAATTGGAAATGTTGATGCTGAAGCTAATGGTCCAAGTTCTTCATTGCCTGCATCTGCACCCTCTTCACAAACAGTGTTTGGAAACATTCCA
Protein sequence

>MS.gene88651.t1

MASHNNWFLVSSLLLTFLQIQTKVFCYQFKVGDLNAWGIPTSANPQVYAKWSKFHNFTLGDSLLFLYPPSQDSLIQVTQESYKSCNTKDPILFMNNGNSLFNITSHGDFYFTSGENGHCQKNQKIHISVGGIGNVDAEANGPSSSLPASAPSSQTVFGNIP