AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene88662


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene88662.t1 MTR_4g128570 96.629 89 3 0 1 89 1 89 5.64e-58 179
MS.gene88662.t1 MTR_4g128410 78.378 74 16 0 16 89 10 83 2.07e-36 124
MS.gene88662.t1 MTR_7g093530 78.378 74 16 0 16 89 9 82 3.70e-36 123
MS.gene88662.t1 MTR_4g126920 87.302 63 8 0 27 89 21 83 4.61e-32 113
MS.gene88662.t1 MTR_4g128580 83.871 62 10 0 28 89 23 84 2.28e-30 108
MS.gene88662.t1 MTR_8g081040 62.791 86 30 1 4 89 6 89 3.17e-30 108
MS.gene88662.t1 MTR_4g128400 60.714 84 32 1 6 89 4 86 2.47e-29 106
MS.gene88662.t1 MTR_2g038860 67.105 76 25 0 14 89 9 84 2.74e-29 106
MS.gene88662.t1 MTR_2g038705 67.105 76 25 0 14 89 9 84 2.74e-29 106
MS.gene88662.t1 MTR_3g084620 59.551 89 33 2 1 89 1 86 6.34e-29 105
MS.gene88662.t1 MTR_8g102220 63.855 83 25 2 6 88 9 86 6.87e-29 104
MS.gene88662.t1 MTR_3g084630 64.103 78 27 1 12 89 10 86 3.16e-28 103
MS.gene88662.t1 MTR_4g128590 56.962 79 17 2 12 89 11 73 6.55e-20 81.3
MS.gene88662.t1 MTR_5g091730 52.564 78 37 0 12 89 9 86 2.80e-18 77.0
MS.gene88662.t1 MTR_3g089540 53.030 66 31 0 24 89 23 88 1.67e-15 69.7
MS.gene88662.t1 MTR_4g097640 47.541 61 32 0 29 89 30 90 2.13e-15 69.3
MS.gene88662.t1 MTR_4g097670 47.541 61 32 0 29 89 30 90 2.13e-15 69.3
MS.gene88662.t1 MTR_4g097700 40.506 79 43 1 15 89 49 127 2.45e-15 69.3
MS.gene88662.t1 MTR_6g033085 43.210 81 43 1 12 89 10 90 1.88e-13 63.9
MS.gene88662.t1 MTR_1g105900 40.000 75 45 0 15 89 18 92 3.61e-13 63.2
MS.gene88662.t1 MTR_7g084770 45.763 59 32 0 31 89 32 90 4.43e-12 60.1
MS.gene88662.t1 MTR_7g084760 45.763 59 32 0 31 89 32 90 4.70e-12 60.1
MS.gene88662.t1 MTR_6g033055 40.230 87 46 2 6 89 7 90 5.15e-12 60.1
MS.gene88662.t1 MTR_8g102910 43.038 79 41 2 12 88 1 77 8.31e-12 59.3
MS.gene88662.t1 MTR_7g084750 45.763 59 32 0 31 89 32 90 9.97e-12 59.3
MS.gene88662.t1 MTR_1g105495 39.024 82 42 1 16 89 12 93 1.28e-11 58.9
MS.gene88662.t1 MTR_2g089140 38.750 80 47 1 10 89 4 81 4.89e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene88662.t1 AT5G57550 64.634 82 28 1 9 89 7 88 1.90e-30 108
MS.gene88662.t1 AT4G25820 72.059 68 19 0 22 89 21 88 2.12e-29 106
MS.gene88662.t1 AT5G57560 62.963 81 29 1 9 89 2 81 2.82e-29 105
MS.gene88662.t1 AT4G25810 63.415 82 28 1 8 89 5 84 9.33e-29 104
MS.gene88662.t1 AT5G57530 73.016 63 17 0 27 89 23 85 3.77e-27 100
MS.gene88662.t1 AT5G57540 74.194 62 16 0 28 89 23 84 7.62e-27 99.8
MS.gene88662.t1 AT4G30270 62.338 77 27 1 13 89 8 82 1.34e-26 98.6
MS.gene88662.t1 AT4G14130 57.317 82 34 1 8 89 6 86 4.76e-26 97.8
MS.gene88662.t1 AT3G23730 60.759 79 30 1 11 89 8 85 1.57e-25 96.3
MS.gene88662.t1 AT2G18800 53.659 82 38 0 8 89 5 86 6.77e-25 95.1
MS.gene88662.t1 AT5G48070 53.571 84 38 1 7 89 5 88 6.81e-24 92.0
MS.gene88662.t1 AT4G30290 56.790 81 33 2 10 89 4 83 3.86e-16 71.2
MS.gene88662.t1 AT4G30280 49.412 85 42 1 6 89 4 88 2.90e-15 68.9
MS.gene88662.t1 AT4G37800 41.026 78 44 1 14 89 15 92 1.40e-14 67.0
MS.gene88662.t1 AT1G65310 61.905 63 23 1 28 89 26 88 2.56e-14 66.2
MS.gene88662.t1 AT1G65310 61.905 63 23 1 28 89 48 110 2.63e-14 66.6
MS.gene88662.t1 AT5G65730 36.905 84 48 2 7 89 14 93 5.88e-14 65.5
MS.gene88662.t1 AT1G11545 37.931 87 51 1 6 89 10 96 2.76e-13 63.5
MS.gene88662.t1 AT4G28850 46.377 69 35 1 20 88 18 84 8.71e-13 62.4
MS.gene88662.t1 AT2G14620 35.065 77 50 0 11 87 17 93 4.10e-12 60.5
MS.gene88662.t1 AT5G13870 45.763 59 32 0 31 89 32 90 8.24e-11 56.6
MS.gene88662.t1 AT5G13870 45.763 59 32 0 31 89 32 90 8.24e-11 56.6
MS.gene88662.t1 AT5G13870 45.763 59 32 0 31 89 32 90 8.24e-11 56.6

Find 20 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACTGTCCTCTTATCTCTAT+TGG 0.164509 8.1:-4409374 MS.gene88662:CDS
CTCGACAAAGCCTCTGGTTC+TGG 0.236949 8.1:-4409235 MS.gene88662:CDS
GCCAAAGAGATATTCATTCT+TGG 0.330231 8.1:+4409204 None:intergenic
TCCAAGAATGAATATCTCTT+TGG 0.372292 8.1:-4409205 MS.gene88662:CDS
AGAGATATTCATTCTTGGAT+TGG 0.408705 8.1:+4409209 None:intergenic
TTGACCGTTGTCGAGTATCT+TGG 0.435436 8.1:+4409273 None:intergenic
CTTTCCCTCGACAAAGCCTC+TGG 0.461846 8.1:-4409241 MS.gene88662:CDS
ATGCAGCTCAAGCTTGTACC+TGG 0.480284 8.1:-4409172 MS.gene88662:CDS
TCTCTCGCTGCAGAATTTCC+AGG 0.481696 8.1:+4409154 None:intergenic
TTCATTACAACATATGCAGC+AGG 0.518113 8.1:-4409340 MS.gene88662:CDS
ATCAGAACTTTGATATAACA+TGG 0.536100 8.1:-4409309 MS.gene88662:CDS
TTTGATATAACATGGGGAGA+TGG 0.571234 8.1:-4409301 MS.gene88662:CDS
TCAGAACTTTGATATAACAT+GGG 0.603368 8.1:-4409308 MS.gene88662:CDS
TGCATATGTTGTAATGAAAG+TGG 0.604062 8.1:+4409345 None:intergenic
CAGAACCAGAGGCTTTGTCG+AGG 0.627145 8.1:+4409236 None:intergenic
AGAACCAGAGGCTTTGTCGA+GGG 0.631194 8.1:+4409237 None:intergenic
GGATTGGAATCCAGAACCAG+AGG 0.639024 8.1:+4409225 None:intergenic
CAGAACTTTGATATAACATG+GGG 0.655512 8.1:-4409307 MS.gene88662:CDS
GCAATTATGAGTGTATGCCA+TGG 0.758165 8.1:+4409405 None:intergenic
CGTGCCAAGATACTCGACAA+CGG 0.804801 8.1:-4409277 MS.gene88662:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATCAGAACTTTGATATAACA+TGG - chr8.1:4409238-4409257 MS.gene88662:CDS 25.0%
! TCAGAACTTTGATATAACAT+GGG - chr8.1:4409239-4409258 MS.gene88662:CDS 25.0%
AGAGATATTCATTCTTGGAT+TGG + chr8.1:4409341-4409360 None:intergenic 30.0%
CAAAAACCAATAGAGATAAG+AGG + chr8.1:4409182-4409201 None:intergenic 30.0%
CAGAACTTTGATATAACATG+GGG - chr8.1:4409240-4409259 MS.gene88662:CDS 30.0%
TCCAAGAATGAATATCTCTT+TGG - chr8.1:4409342-4409361 MS.gene88662:CDS 30.0%
TGCATATGTTGTAATGAAAG+TGG + chr8.1:4409205-4409224 None:intergenic 30.0%
GCCAAAGAGATATTCATTCT+TGG + chr8.1:4409346-4409365 None:intergenic 35.0%
TTCATTACAACATATGCAGC+AGG - chr8.1:4409207-4409226 MS.gene88662:CDS 35.0%
TTTGATATAACATGGGGAGA+TGG - chr8.1:4409246-4409265 MS.gene88662:CDS 35.0%
CACTGTCCTCTTATCTCTAT+TGG - chr8.1:4409173-4409192 MS.gene88662:CDS 40.0%
TTGACCGTTGTCGAGTATCT+TGG + chr8.1:4409277-4409296 None:intergenic 45.0%
ATGCAGCTCAAGCTTGTACC+TGG - chr8.1:4409375-4409394 MS.gene88662:CDS 50.0%
CGTGCCAAGATACTCGACAA+CGG - chr8.1:4409270-4409289 MS.gene88662:CDS 50.0%
GGATTGGAATCCAGAACCAG+AGG + chr8.1:4409325-4409344 None:intergenic 50.0%
TCTCTCGCTGCAGAATTTCC+AGG + chr8.1:4409396-4409415 None:intergenic 50.0%
! AGAACCAGAGGCTTTGTCGA+GGG + chr8.1:4409313-4409332 None:intergenic 50.0%
CTTTCCCTCGACAAAGCCTC+TGG - chr8.1:4409306-4409325 MS.gene88662:CDS 55.0%
! CAGAACCAGAGGCTTTGTCG+AGG + chr8.1:4409314-4409333 None:intergenic 55.0%
! CTCGACAAAGCCTCTGGTTC+TGG - chr8.1:4409312-4409331 MS.gene88662:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 4409144 4409425 4409144 ID=MS.gene88662
chr8.1 mRNA 4409144 4409425 4409144 ID=MS.gene88662.t1;Parent=MS.gene88662
chr8.1 exon 4409144 4409425 4409144 ID=MS.gene88662.t1.exon1;Parent=MS.gene88662.t1
chr8.1 CDS 4409144 4409425 4409144 ID=cds.MS.gene88662.t1;Parent=MS.gene88662.t1
Gene Sequence

>MS.gene88662

ATGGCATACACTCATAATTGCTCAGTGATCACTGTCCTCTTATCTCTATTGGTTTTTGCCACTTTCATTACAACATATGCAGCAGGAAACTTCTATCAGAACTTTGATATAACATGGGGAGATGGTCGTGCCAAGATACTCGACAACGGTCAACTTCTCACTCTTTCCCTCGACAAAGCCTCTGGTTCTGGATTCCAATCCAAGAATGAATATCTCTTTGGCAACATTGATATGCAGCTCAAGCTTGTACCTGGAAATTCTGCAGCGAGAGAGAGAAAATGA

Protein sequence

>MS.gene88662.t1

MAYTHNCSVITVLLSLLVFATFITTYAAGNFYQNFDITWGDGRAKILDNGQLLTLSLDKASGSGFQSKNEYLFGNIDMQLKLVPGNSAARERK