AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene95574

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95574.t1 MTR_3g103160 73.077 78 21 0 3 80 338 415 5.94e-33 118
MS.gene95574.t1 MTR_3g103120 65.060 83 29 0 1 83 732 814 2.84e-32 117
MS.gene95574.t1 MTR_3g103110 67.470 83 27 0 1 83 691 773 7.46e-32 116
MS.gene95574.t1 MTR_7g109640 63.750 80 29 0 1 80 687 766 5.99e-29 108
MS.gene95574.t1 MTR_5g024390 56.627 83 36 0 1 83 319 401 8.94e-28 103
MS.gene95574.t1 MTR_5g024500 54.217 83 38 0 1 83 319 401 2.43e-26 100
MS.gene95574.t1 MTR_5g071340 45.122 82 45 0 2 83 985 1066 5.45e-21 85.5
MS.gene95574.t1 MTR_3g464550 40.244 82 49 0 2 83 909 990 2.64e-18 77.8
MS.gene95574.t1 MTR_2g078040 41.250 80 47 0 2 81 1067 1146 4.86e-16 71.6
MS.gene95574.t1 MTR_1g072130 35.000 80 52 0 2 81 1121 1200 9.35e-14 65.1
MS.gene95574.t1 MTR_7g095140 39.437 71 43 0 2 72 202 272 1.93e-13 63.9
MS.gene95574.t1 MTR_1g103830 34.211 76 50 0 2 77 913 988 2.14e-11 58.5
MS.gene95574.t1 MTR_4g057290 33.333 81 54 0 4 84 442 522 8.54e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95574.t1 AT5G58610 42.683 82 47 0 2 83 909 990 3.91e-18 77.4
MS.gene95574.t1 AT5G58610 42.683 82 47 0 2 83 909 990 3.91e-18 77.4
MS.gene95574.t1 AT5G58610 42.683 82 47 0 2 83 874 955 4.44e-18 77.4
MS.gene95574.t1 AT5G58610 42.683 82 47 0 2 83 874 955 4.58e-18 77.4
MS.gene95574.t1 AT5G58610 42.683 82 47 0 2 83 678 759 4.59e-18 77.4
MS.gene95574.t1 AT5G58610 42.683 82 47 0 2 83 900 981 4.62e-18 77.4
MS.gene95574.t1 AT5G58610 42.683 82 47 0 2 83 900 981 4.67e-18 77.4
MS.gene95574.t1 AT5G58610 42.683 82 47 0 2 83 909 990 4.95e-18 77.4
MS.gene95574.t1 AT5G36740 42.500 80 46 0 2 81 707 786 5.29e-18 77.0
MS.gene95574.t1 AT5G36740 42.500 80 46 0 2 81 850 929 5.85e-18 77.0
MS.gene95574.t1 AT5G36740 42.500 80 46 0 2 81 850 929 5.85e-18 77.0
MS.gene95574.t1 AT3G14980 39.241 79 48 0 2 80 924 1002 4.08e-16 71.6
MS.gene95574.t1 AT3G14980 39.241 79 48 0 2 80 879 957 4.09e-16 71.6
MS.gene95574.t1 AT3G14980 39.241 79 48 0 2 80 924 1002 4.10e-16 71.6
MS.gene95574.t1 AT3G14980 39.241 79 48 0 2 80 924 1002 4.10e-16 71.6
MS.gene95574.t1 AT3G14980 39.241 79 48 0 2 80 924 1002 4.10e-16 71.6
MS.gene95574.t1 AT5G63900 44.737 76 41 1 5 80 445 519 2.67e-15 69.3
MS.gene95574.t1 AT2G37520 35.802 81 52 0 4 84 717 797 4.61e-13 63.2
MS.gene95574.t1 AT3G53680 34.568 81 53 0 4 84 733 813 2.35e-12 61.2
MS.gene95574.t1 AT3G53680 34.568 81 53 0 4 84 735 815 2.35e-12 61.2
MS.gene95574.t1 AT1G05380 32.500 80 54 0 2 81 826 905 2.75e-12 60.8
MS.gene95574.t1 AT1G05380 32.500 80 54 0 2 81 826 905 2.75e-12 60.8
MS.gene95574.t1 AT1G05380 32.500 80 54 0 2 81 826 905 2.75e-12 60.8
MS.gene95574.t1 AT4G14920 32.500 80 54 0 2 81 884 963 7.02e-12 59.7
MS.gene95574.t1 AT4G14920 32.500 80 54 0 2 81 884 963 7.02e-12 59.7
MS.gene95574.t1 AT4G14920 32.500 80 54 0 2 81 884 963 7.09e-12 59.7
MS.gene95574.t1 AT2G27980 32.500 80 54 0 4 83 959 1038 4.74e-11 57.4

Find 17 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTCTTCGATGTTCTTTCT+TGG 0.292807 4.3:+50234294 None:intergenic
GTGGCAACCGTAAGGATTTA+TGG 0.295747 4.3:-50234349 MS.gene95574:CDS
TGACTTGGGAGTTCGGAGTT+TGG 0.408467 4.3:-50234227 MS.gene95574:CDS
GGTTGAATGACTTGGGAGTT+CGG 0.442556 4.3:-50234234 MS.gene95574:CDS
TCTTCGATGTTCTTTCTTGG+TGG 0.446230 4.3:+50234297 None:intergenic
GGTGTCTATAACATCTTTAG+AGG 0.451179 4.3:+50234195 None:intergenic
CTCTTGACCATAAATCCTTA+CGG 0.483392 4.3:+50234342 None:intergenic
TGAGAATCGGTTGAATGACT+TGG 0.518867 4.3:-50234242 MS.gene95574:CDS
GAGAATCGGTTGAATGACTT+GGG 0.540863 4.3:-50234241 MS.gene95574:CDS
AAAATGAAATGCATTTGTCC+AGG 0.546196 4.3:+50234174 None:intergenic
TGATGAGTGTGCTTGAGAAT+CGG 0.551569 4.3:-50234255 MS.gene95574:CDS
TGATATATGTGGCAACCGTA+AGG 0.563661 4.3:-50234357 MS.gene95574:CDS
CTAAAGATGTTATAGACACC+TGG 0.565432 4.3:-50234192 MS.gene95574:CDS
CGTAAGGATTTATGGTCAAG+AGG 0.572874 4.3:-50234341 MS.gene95574:CDS
GGTTGTTGAGATAGTTGTCA+TGG 0.576253 4.3:-50234320 MS.gene95574:CDS
AATGGATAAAGTGATATATG+TGG 0.588383 4.3:-50234368 MS.gene95574:CDS
AAGAAAGAACATCGAAGACA+AGG 0.618287 4.3:-50234292 MS.gene95574:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATACTTTCATTGAATTTC+AGG - chr4.3:50234348-50234367 MS.gene95574:CDS 20.0%
!!! ATTTCATTTTGCTATGATGA+CGG - chr4.3:50234300-50234319 MS.gene95574:CDS 25.0%
AAAATGAAATGCATTTGTCC+AGG + chr4.3:50234290-50234309 None:intergenic 30.0%
AAGAAAGAACATCGAAGACA+AGG - chr4.3:50234169-50234188 MS.gene95574:CDS 35.0%
CTAAAGATGTTATAGACACC+TGG - chr4.3:50234269-50234288 MS.gene95574:CDS 35.0%
CTCTTGACCATAAATCCTTA+CGG + chr4.3:50234122-50234141 None:intergenic 35.0%
GGTGTCTATAACATCTTTAG+AGG + chr4.3:50234269-50234288 None:intergenic 35.0%
TTGTCTTCGATGTTCTTTCT+TGG + chr4.3:50234170-50234189 None:intergenic 35.0%
CGTAAGGATTTATGGTCAAG+AGG - chr4.3:50234120-50234139 MS.gene95574:intron 40.0%
GAGAATCGGTTGAATGACTT+GGG - chr4.3:50234220-50234239 MS.gene95574:CDS 40.0%
GGTTGTTGAGATAGTTGTCA+TGG - chr4.3:50234141-50234160 MS.gene95574:intron 40.0%
TCTTCGATGTTCTTTCTTGG+TGG + chr4.3:50234167-50234186 None:intergenic 40.0%
TGAGAATCGGTTGAATGACT+TGG - chr4.3:50234219-50234238 MS.gene95574:CDS 40.0%
TGATATATGTGGCAACCGTA+AGG - chr4.3:50234104-50234123 MS.gene95574:intron 40.0%
TGATGAGTGTGCTTGAGAAT+CGG - chr4.3:50234206-50234225 MS.gene95574:CDS 40.0%
GTGGCAACCGTAAGGATTTA+TGG - chr4.3:50234112-50234131 MS.gene95574:intron 45.0%
! GGTTGAATGACTTGGGAGTT+CGG - chr4.3:50234227-50234246 MS.gene95574:CDS 45.0%
! TGACTTGGGAGTTCGGAGTT+TGG - chr4.3:50234234-50234253 MS.gene95574:CDS 50.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 50234094 50234389 50234094 ID=MS.gene95574
chr4.3 mRNA 50234094 50234389 50234094 ID=MS.gene95574.t1;Parent=MS.gene95574
chr4.3 exon 50234149 50234389 50234149 ID=MS.gene95574.t1.exon1;Parent=MS.gene95574.t1
chr4.3 CDS 50234149 50234389 50234149 ID=cds.MS.gene95574.t1;Parent=MS.gene95574.t1
chr4.3 exon 50234094 50234113 50234094 ID=MS.gene95574.t1.exon2;Parent=MS.gene95574.t1
chr4.3 CDS 50234094 50234113 50234094 ID=cds.MS.gene95574.t1;Parent=MS.gene95574.t1
Gene Sequence

>MS.gene95574

ATGGATAAAGTGATATATGTGGCAACCGTAAGGATTTATGGTCAAGAGGTTGTTGAGATAGTTGTCATGGCCACCAAGAAAGAACATCGAAGACAAGGAATGTGTCGTTTGTTGATGAGTGTGCTTGAGAATCGGTTGAATGACTTGGGAGTTCGGAGTTTGGTTTTGCATTCCTCTAAAGATGTTATAGACACCTGGACAAATGCATTTCATTTTGCTATGATGACGGATGAAGACAAGCGTAAATTTATTGATTATACTTTCATTGAATTTCAGGACATTATCATGTGCCTTAA
Protein sequence

>MS.gene95574.t1

MDKVIYVATVRIYGQEVVEIVVMATKKEHRRQGMCRLLMSVLENRLNDLGVRSLVLHSSKDVIDTWTNAFHFAMMTDEDKRHYHVP