AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene54241

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene54241.t1 MTR_8g042540 52.055 73 35 0 8 80 15 87 8.50e-25 88.6
MS.gene54241.t1 MTR_8g042540 51.351 74 36 0 7 80 26 99 1.75e-24 88.2
MS.gene54241.t1 MTR_1g019580 49.315 73 37 0 9 81 59 131 2.91e-23 86.3
MS.gene54241.t1 MTR_4g032560 53.425 73 34 0 8 80 229 301 1.15e-22 88.6
MS.gene54241.t1 MTR_4g032580 53.425 73 34 0 8 80 229 301 1.22e-22 88.2
MS.gene54241.t1 MTR_1g069260 50.685 73 36 0 7 79 216 288 3.12e-22 87.0
MS.gene54241.t1 MTR_1g105765 47.945 73 38 0 9 81 202 274 4.08e-20 81.3
MS.gene54241.t1 MTR_1g105780 47.945 73 38 0 9 81 202 274 4.12e-20 81.3
MS.gene54241.t1 MTR_3g048970 52.778 72 34 0 8 79 205 276 2.28e-19 79.3
MS.gene54241.t1 MTR_1g084880 52.778 72 34 0 8 79 205 276 2.31e-19 79.3
MS.gene54241.t1 MTR_7g110090 54.412 68 31 0 13 80 205 272 2.81e-19 79.0
MS.gene54241.t1 MTR_3g452180 52.941 68 32 0 13 80 121 188 1.21e-18 75.9
MS.gene54241.t1 MTR_1g047540 50.704 71 35 0 9 79 186 256 9.00e-18 76.3
MS.gene54241.t1 MTR_4g057880 47.222 72 38 0 8 79 1 72 2.03e-17 69.7
MS.gene54241.t1 MTR_4g121040 41.558 77 42 1 1 74 94 170 1.43e-16 70.5
MS.gene54241.t1 MTR_5g094740 43.836 73 41 0 7 79 747 819 2.58e-16 72.0
MS.gene54241.t1 MTR_5g066660 45.588 68 37 0 8 75 173 240 2.04e-15 68.6
MS.gene54241.t1 MTR_3g070250 47.222 72 38 0 8 79 210 281 3.40e-15 68.2
MS.gene54241.t1 MTR_1g087870 44.118 68 38 0 13 80 158 225 4.66e-15 67.4
MS.gene54241.t1 MTR_0152s0060 46.032 63 34 0 7 69 250 312 6.61e-15 67.8
MS.gene54241.t1 MTR_2g100360 50.980 51 25 0 8 58 205 255 5.00e-13 62.0
MS.gene54241.t1 MTR_3g085990 43.860 57 32 0 25 81 181 237 5.19e-12 58.9
MS.gene54241.t1 MTR_2g016390 47.368 57 30 0 8 64 638 694 1.34e-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

Find 23 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTATGCTCATTTCAAAAT+TGG 0.166697 6.2:+70081350 MS.gene54241:CDS
CCTTTGTGTCATCCGCAAAT+AGG 0.307774 6.2:+70081469 MS.gene54241:CDS
AATTAGTATTGTCATAAATC+AGG 0.351474 6.2:-70081331 None:intergenic
CGCATTCAAATTCCTATTTG+CGG 0.416200 6.2:-70081481 None:intergenic
TATGCTCATTTCAAAATTGG+AGG 0.473400 6.2:+70081353 MS.gene54241:CDS
GCTCATTTCAAAATTGGAGG+TGG 0.484745 6.2:+70081356 MS.gene54241:CDS
TGGAGGTGGGTGGAAGAGAA+TGG 0.497129 6.2:+70081370 MS.gene54241:CDS
CAAGGTTCCCGCATACTGCT+TGG 0.516857 6.2:+70081413 MS.gene54241:CDS
AACTACAACTTTGAAGATTG+TGG 0.517836 6.2:+70081280 MS.gene54241:CDS
CTTGCTCACAATCTTCGTCA+AGG 0.521904 6.2:+70081395 MS.gene54241:CDS
GTCTCGTTCTTTCGAGCAGA+CGG 0.524828 6.2:-70081440 None:intergenic
CGGTGCACCAAGCAGTATGC+GGG 0.556266 6.2:-70081420 None:intergenic
CTCATTTCAAAATTGGAGGT+GGG 0.557969 6.2:+70081357 MS.gene54241:CDS
ATTAGTATTGTCATAAATCA+GGG 0.562269 6.2:-70081330 None:intergenic
CCTATTTGCGGATGACACAA+AGG 0.593020 6.2:-70081469 None:intergenic
ATTTCAAAATTGGAGGTGGG+TGG 0.595329 6.2:+70081360 MS.gene54241:CDS
TTGAAGATTGTGGATGACAA+TGG 0.625224 6.2:+70081290 MS.gene54241:CDS
ACGGTGCACCAAGCAGTATG+CGG 0.625703 6.2:-70081421 None:intergenic
AGACTATGATGGTGGATATG+TGG 0.626131 6.2:+70081132 None:intergenic
ACTTCTGAAGACTATGATGG+TGG 0.636244 6.2:+70081124 None:intergenic
GGATGACAATGGCAACGTGT+GGG 0.642211 6.2:+70081301 MS.gene54241:CDS
TGGATGACAATGGCAACGTG+TGG 0.648240 6.2:+70081300 MS.gene54241:CDS
GATGACAATGGCAACGTGTG+GGG 0.660923 6.2:+70081302 MS.gene54241:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTAGTATTGTCATAAATC+AGG - chr6.2:70081334-70081353 None:intergenic 20.0%
!! AATTATGCTCATTTCAAAAT+TGG + chr6.2:70081350-70081369 MS.gene54241:CDS 20.0%
!! ATTAGTATTGTCATAAATCA+GGG - chr6.2:70081333-70081352 None:intergenic 20.0%
! TTATATTCTCAACGTTTGTA+AGG + chr6.2:70081178-70081197 MS.gene54241:intron 25.0%
TATGCTCATTTCAAAATTGG+AGG + chr6.2:70081353-70081372 MS.gene54241:CDS 30.0%
! AACTACAACTTTGAAGATTG+TGG + chr6.2:70081280-70081299 MS.gene54241:CDS 30.0%
CTCATTTCAAAATTGGAGGT+GGG + chr6.2:70081357-70081376 MS.gene54241:CDS 35.0%
TTGAAGATTGTGGATGACAA+TGG + chr6.2:70081290-70081309 MS.gene54241:CDS 35.0%
ACTGCATGAGTTTGCAATGA+TGG + chr6.2:70081228-70081247 MS.gene54241:intron 40.0%
ATTTCAAAATTGGAGGTGGG+TGG + chr6.2:70081360-70081379 MS.gene54241:CDS 40.0%
CTGCATGAGTTTGCAATGAT+GGG + chr6.2:70081229-70081248 MS.gene54241:intron 40.0%
GCTCATTTCAAAATTGGAGG+TGG + chr6.2:70081356-70081375 MS.gene54241:CDS 40.0%
! GGATTTTGTGAGGTTCGTAT+TGG + chr6.2:70081250-70081269 MS.gene54241:intron 40.0%
!! TGCAATGATGGGATTTTGTG+AGG + chr6.2:70081240-70081259 MS.gene54241:intron 40.0%
CTTGCTCACAATCTTCGTCA+AGG + chr6.2:70081395-70081414 MS.gene54241:CDS 45.0%
GATGACAATGGCAACGTGTG+GGG + chr6.2:70081302-70081321 MS.gene54241:CDS 50.0%
GGATGACAATGGCAACGTGT+GGG + chr6.2:70081301-70081320 MS.gene54241:CDS 50.0%
GTCTCGTTCTTTCGAGCAGA+CGG - chr6.2:70081443-70081462 None:intergenic 50.0%
TGGATGACAATGGCAACGTG+TGG + chr6.2:70081300-70081319 MS.gene54241:CDS 50.0%
ACGGTGCACCAAGCAGTATG+CGG - chr6.2:70081424-70081443 None:intergenic 55.0%
CAAGGTTCCCGCATACTGCT+TGG + chr6.2:70081413-70081432 MS.gene54241:CDS 55.0%
TGGAGGTGGGTGGAAGAGAA+TGG + chr6.2:70081370-70081389 MS.gene54241:CDS 55.0%
CGGTGCACCAAGCAGTATGC+GGG - chr6.2:70081423-70081442 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 70081137 70081490 70081137 ID=MS.gene54241
chr6.2 mRNA 70081137 70081490 70081137 ID=MS.gene54241.t1;Parent=MS.gene54241
chr6.2 exon 70081137 70081153 70081137 ID=MS.gene54241.t1.exon1;Parent=MS.gene54241.t1
chr6.2 CDS 70081137 70081153 70081137 ID=cds.MS.gene54241.t1;Parent=MS.gene54241.t1
chr6.2 exon 70081262 70081490 70081262 ID=MS.gene54241.t1.exon2;Parent=MS.gene54241.t1
chr6.2 CDS 70081262 70081490 70081262 ID=cds.MS.gene54241.t1;Parent=MS.gene54241.t1
Gene Sequence

>MS.gene54241

ATGATGGTGGATATGTGGTGAGTAAAAATTAATATTACTGATTATATTCTCAACGTTTGTAAGGTATTAAATTAATGATGTTATATTTTGCACTGCATGAGTTTGCAATGATGGGATTTTGTGAGGTTCGTATTGGATGTGACAACTACAACTTTGAAGATTGTGGATGACAATGGCAACGTGTGGGGTTGCACCCTGATTTATGACAATACTAATTATGCTCATTTCAAAATTGGAGGTGGGTGGAAGAGAATGGTTCTTGCTCACAATCTTCGTCAAGGTTCCCGCATACTGCTTGGTGCACCGTCTGCTCGAAAGAACGAGACTCTTTACCTTTGTGTCATCCGCAAATAG
Protein sequence

>MS.gene54241.t1

MMVDMWFVLDVTTTTLKIVDDNGNVWGCTLIYDNTNYAHFKIGGGWKRMVLAHNLRQGSRILLGAPSARKNETLYLCVIRK