AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene024359

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene024359.t1 MTR_7g070390 95.312 192 9 0 1 192 1 192 5.27e-126 353
MS.gene024359.t1 MTR_4g013350 68.362 177 54 2 17 192 22 197 4.79e-87 254
MS.gene024359.t1 MTR_4g013320 70.760 171 48 2 23 192 30 199 2.91e-85 250
MS.gene024359.t1 MTR_4g013345 67.978 178 55 2 16 192 20 196 3.66e-85 249
MS.gene024359.t1 MTR_4g013335 68.824 170 51 2 23 192 29 196 1.05e-83 246
MS.gene024359.t1 MTR_4g013330 67.442 172 52 2 24 192 29 199 4.99e-83 244
MS.gene024359.t1 MTR_4g013325 69.231 169 49 2 25 192 33 199 9.68e-80 236
MS.gene024359.t1 MTR_4g013310 65.497 171 55 3 23 192 30 197 1.37e-77 230
MS.gene024359.t1 MTR_4g013385 56.915 188 78 1 5 192 6 190 7.88e-75 223
MS.gene024359.t1 MTR_0433s0040 56.915 188 78 1 5 192 6 190 7.88e-75 223
MS.gene024359.t1 MTR_4g013770 55.866 179 74 2 16 192 16 191 1.82e-65 199
MS.gene024359.t1 MTR_1g054525 50.000 192 87 5 5 192 6 192 7.79e-59 182
MS.gene024359.t1 MTR_4g013355 47.619 189 85 3 5 192 4 179 5.75e-57 177
MS.gene024359.t1 MTR_4g073950 47.647 170 82 2 30 192 23 192 1.59e-53 169
MS.gene024359.t1 MTR_7g093870 50.641 156 71 2 43 192 38 193 3.29e-51 164
MS.gene024359.t1 MTR_7g093790 43.850 187 98 4 11 192 7 191 2.26e-48 156
MS.gene024359.t1 MTR_7g093850 49.405 168 79 4 28 192 30 194 2.56e-48 156
MS.gene024359.t1 MTR_1g056370 42.857 189 95 3 7 191 6 185 5.13e-48 155
MS.gene024359.t1 MTR_7g093820 50.980 153 71 3 43 192 43 194 7.19e-48 155
MS.gene024359.t1 MTR_7g093830 48.214 168 81 4 28 192 29 193 2.38e-47 154
MS.gene024359.t1 MTR_3g105640 41.622 185 97 3 11 192 12 188 2.15e-45 148
MS.gene024359.t1 MTR_3g105630 39.286 196 103 4 1 192 6 189 1.34e-44 146
MS.gene024359.t1 MTR_5g096120 42.051 195 96 5 5 192 5 189 5.00e-44 145
MS.gene024359.t1 MTR_4g078885 44.586 157 86 1 36 192 30 185 8.05e-44 144
MS.gene024359.t1 MTR_3g034030 44.586 157 86 1 36 192 30 185 3.26e-43 143
MS.gene024359.t1 MTR_4g122110 32.192 146 98 1 48 192 35 180 2.18e-21 86.7
MS.gene024359.t1 MTR_4g122130 32.192 146 98 1 48 192 35 180 6.90e-20 82.8
MS.gene024359.t1 MTR_8g099115 30.968 155 96 4 44 188 33 186 5.05e-16 72.8
MS.gene024359.t1 MTR_8g099135 30.282 142 89 3 47 179 32 172 4.00e-15 70.5
MS.gene024359.t1 MTR_4g049550 26.000 150 110 1 39 187 24 173 2.21e-14 68.2
MS.gene024359.t1 MTR_4g049570 28.082 146 99 2 46 190 31 171 4.70e-13 64.7
MS.gene024359.t1 MTR_1g115510 34.454 119 71 3 80 191 235 353 7.76e-13 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene024359.t1 AT1G58170 66.883 154 50 1 40 192 32 185 9.72e-75 223
MS.gene024359.t1 AT1G55210 55.376 186 80 3 7 192 5 187 1.18e-69 210
MS.gene024359.t1 AT1G55210 55.376 186 80 3 7 192 5 187 1.18e-69 210
MS.gene024359.t1 AT5G49040 55.056 178 78 2 16 192 15 191 2.98e-67 204
MS.gene024359.t1 AT3G13650 54.286 175 75 4 18 192 17 186 9.52e-66 200
MS.gene024359.t1 AT1G65870 52.318 151 71 1 42 191 39 189 1.34e-54 172
MS.gene024359.t1 AT5G49030 54.268 164 73 2 16 178 15 177 1.56e-52 181
MS.gene024359.t1 AT3G13660 57.600 125 53 0 68 192 1 125 3.99e-51 161
MS.gene024359.t1 AT2G21100 47.368 152 79 1 41 191 36 187 8.22e-50 160
MS.gene024359.t1 AT2G21100 47.368 152 79 1 41 191 36 187 8.22e-50 160
MS.gene024359.t1 AT3G13662 51.351 148 69 2 31 178 27 171 1.09e-49 159
MS.gene024359.t1 AT1G22900 50.331 151 72 2 42 191 45 193 9.46e-49 157
MS.gene024359.t1 AT5G42500 46.000 150 78 2 43 191 38 185 3.61e-47 153
MS.gene024359.t1 AT5G42510 45.333 150 79 2 43 191 35 182 5.17e-46 150
MS.gene024359.t1 AT4G38700 40.385 156 86 3 44 192 35 190 1.15e-36 126
MS.gene024359.t1 AT3G58090 49.091 110 56 0 82 191 162 271 1.95e-36 128
MS.gene024359.t1 AT2G21110 38.710 155 90 1 43 192 32 186 9.55e-35 121
MS.gene024359.t1 AT4G11210 28.743 167 112 4 27 192 24 184 2.75e-14 68.2
MS.gene024359.t1 AT4G11180 29.814 161 99 5 31 187 29 179 7.26e-11 58.9

Find 40 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGTAGCACCATCACTATTT+TGG 0.149780 7.4:-33541658 MS.gene024359:CDS
AATTCAAGTCCTAAGGTTAA+AGG 0.191399 7.4:+33541789 None:intergenic
GTCTAATGAACGCATGAAAT+TGG 0.290862 7.4:+33541974 None:intergenic
AGACCACTGCCACCAATTAT+AGG 0.303781 7.4:+33541600 None:intergenic
GTTAGGGAAATGCCTATAAT+TGG 0.317348 7.4:-33541612 MS.gene024359:CDS
GGAGAAAGAAGATGGAGAAT+TGG 0.330877 7.4:+33542045 None:intergenic
ACTTGAATTGAGTTCCAAAT+TGG 0.341559 7.4:-33541775 MS.gene024359:CDS
TAAGCCATTTAAAATTCTAT+TGG 0.343050 7.4:-33541914 MS.gene024359:CDS
TCTCTAAATTTAATTCTTTG+AGG 0.362138 7.4:+33541952 None:intergenic
TCCCTAACCTTATCATAAAC+AGG 0.368028 7.4:+33541627 None:intergenic
ATTCAAGTCCTAAGGTTAAA+GGG 0.384454 7.4:+33541790 None:intergenic
ATCCTGTTTATGATAAGGTT+AGG 0.398598 7.4:-33541629 MS.gene024359:CDS
ATGCTCAACTTAGAACTCAT+TGG 0.409836 7.4:-33541557 MS.gene024359:CDS
GGAACAATTTGTATTGAAGA+AGG 0.421585 7.4:+33541867 None:intergenic
GAGGAATCCTGTTTATGATA+AGG 0.426161 7.4:-33541634 MS.gene024359:CDS
ATTGAGAACCCTTTAACCTT+AGG 0.426768 7.4:-33541798 MS.gene024359:CDS
TATTGGCATGACATAGTTAG+TGG 0.428044 7.4:-33541897 MS.gene024359:CDS
TGCTTTGATTAAAGATGTAA+AGG 0.447724 7.4:+33542010 None:intergenic
AACTATAGCATCATATGTCT+TGG 0.451960 7.4:+33541527 None:intergenic
TCCTGTTTATGATAAGGTTA+GGG 0.471393 7.4:-33541628 MS.gene024359:CDS
GGTGAAGAGGAGAAAGAAGA+TGG 0.478393 7.4:+33542037 None:intergenic
GGAACTCAATTCAAGTCCTA+AGG 0.481627 7.4:+33541782 None:intergenic
CAAAATTCATAGCCATGATA+AGG 0.483642 7.4:+33541703 None:intergenic
GCTTTGATTAAAGATGTAAA+GGG 0.491098 7.4:+33542011 None:intergenic
GAGCATATCCTCTAGCAAAT+CGG 0.492927 7.4:+33541574 None:intergenic
GAATTGAGTTCCAAATTGGT+TGG 0.495087 7.4:-33541771 MS.gene024359:CDS
GAACAATTTGTATTGAAGAA+GGG 0.503131 7.4:+33541868 None:intergenic
ATGTAAAGGGAGTGGTGAAG+AGG 0.506300 7.4:+33542024 None:intergenic
TACCTCACTTTGTGATGTTG+AGG 0.511706 7.4:+33541728 None:intergenic
ATGCCTATAATTGGTGGCAG+TGG 0.539037 7.4:-33541603 MS.gene024359:CDS
GATTAAAGATGTAAAGGGAG+TGG 0.544683 7.4:+33542016 None:intergenic
AGGGAAATGCCTATAATTGG+TGG 0.574338 7.4:-33541609 MS.gene024359:CDS
AAATTGGTTGGAAAAGCACA+AGG 0.580992 7.4:-33541759 MS.gene024359:CDS
GTTAACTAAACCAAAGGCAG+TGG 0.584234 7.4:+33541824 None:intergenic
AAGTGAGGTAGACCTTATCA+TGG 0.591488 7.4:-33541715 MS.gene024359:CDS
AATCATGTTAACTAAACCAA+AGG 0.600759 7.4:+33541818 None:intergenic
TGCCTCAACATCACAAAGTG+AGG 0.629959 7.4:-33541730 MS.gene024359:CDS
ATTCCTCCCCAAAATAGTGA+TGG 0.635430 7.4:+33541650 None:intergenic
ATTATTGAAGGAAAGTACAA+TGG 0.648578 7.4:-33541678 MS.gene024359:CDS
AATTGGTTGGAAAAGCACAA+GGG 0.705686 7.4:-33541758 MS.gene024359:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCTCTAAATTTAATTCTTTG+AGG + chr7.4:33541601-33541620 None:intergenic 20.0%
!!! ATGAATTTTGCTATTATTGA+AGG - chr7.4:33541860-33541879 MS.gene024359:CDS 20.0%
!!! TAAGCCATTTAAAATTCTAT+TGG - chr7.4:33541636-33541655 MS.gene024359:CDS 20.0%
! AATCATGTTAACTAAACCAA+AGG + chr7.4:33541735-33541754 None:intergenic 25.0%
! GAACAATTTGTATTGAAGAA+GGG + chr7.4:33541685-33541704 None:intergenic 25.0%
! GCTTTGATTAAAGATGTAAA+GGG + chr7.4:33541542-33541561 None:intergenic 25.0%
! TGCTTTGATTAAAGATGTAA+AGG + chr7.4:33541543-33541562 None:intergenic 25.0%
!! ATTATTGAAGGAAAGTACAA+TGG - chr7.4:33541872-33541891 MS.gene024359:CDS 25.0%
!! CATGCCAATAGAATTTTAAA+TGG + chr7.4:33541643-33541662 None:intergenic 25.0%
AACTATAGCATCATATGTCT+TGG + chr7.4:33542026-33542045 None:intergenic 30.0%
AATTCAAGTCCTAAGGTTAA+AGG + chr7.4:33541764-33541783 None:intergenic 30.0%
ACTTGAATTGAGTTCCAAAT+TGG - chr7.4:33541775-33541794 MS.gene024359:CDS 30.0%
ATCCTGTTTATGATAAGGTT+AGG - chr7.4:33541921-33541940 MS.gene024359:CDS 30.0%
ATTCAAGTCCTAAGGTTAAA+GGG + chr7.4:33541763-33541782 None:intergenic 30.0%
CAAAATTCATAGCCATGATA+AGG + chr7.4:33541850-33541869 None:intergenic 30.0%
GGAACAATTTGTATTGAAGA+AGG + chr7.4:33541686-33541705 None:intergenic 30.0%
TCCTGTTTATGATAAGGTTA+GGG - chr7.4:33541922-33541941 MS.gene024359:CDS 30.0%
ATGCTCAACTTAGAACTCAT+TGG - chr7.4:33541993-33542012 MS.gene024359:CDS 35.0%
ATTGAGAACCCTTTAACCTT+AGG - chr7.4:33541752-33541771 MS.gene024359:CDS 35.0%
GAATTGAGTTCCAAATTGGT+TGG - chr7.4:33541779-33541798 MS.gene024359:CDS 35.0%
GAGGAATCCTGTTTATGATA+AGG - chr7.4:33541916-33541935 MS.gene024359:CDS 35.0%
GATTAAAGATGTAAAGGGAG+TGG + chr7.4:33541537-33541556 None:intergenic 35.0%
GTCTAATGAACGCATGAAAT+TGG + chr7.4:33541579-33541598 None:intergenic 35.0%
GTTAGGGAAATGCCTATAAT+TGG - chr7.4:33541938-33541957 MS.gene024359:CDS 35.0%
TATTGGCATGACATAGTTAG+TGG - chr7.4:33541653-33541672 MS.gene024359:CDS 35.0%
TCCCTAACCTTATCATAAAC+AGG + chr7.4:33541926-33541945 None:intergenic 35.0%
! AAATTGGTTGGAAAAGCACA+AGG - chr7.4:33541791-33541810 MS.gene024359:CDS 35.0%
! AATTGGTTGGAAAAGCACAA+GGG - chr7.4:33541792-33541811 MS.gene024359:CDS 35.0%
! TTGTGCTTTTCCAACCAATT+TGG + chr7.4:33541792-33541811 None:intergenic 35.0%
AAAAACTCAACCACTGCCTT+TGG - chr7.4:33541716-33541735 MS.gene024359:CDS 40.0%
AAGTGAGGTAGACCTTATCA+TGG - chr7.4:33541835-33541854 MS.gene024359:CDS 40.0%
AGGGAAATGCCTATAATTGG+TGG - chr7.4:33541941-33541960 MS.gene024359:CDS 40.0%
ATTCCTCCCCAAAATAGTGA+TGG + chr7.4:33541903-33541922 None:intergenic 40.0%
GAGCATATCCTCTAGCAAAT+CGG + chr7.4:33541979-33541998 None:intergenic 40.0%
GGAACTCAATTCAAGTCCTA+AGG + chr7.4:33541771-33541790 None:intergenic 40.0%
GGAGAAAGAAGATGGAGAAT+TGG + chr7.4:33541508-33541527 None:intergenic 40.0%
GTTAACTAAACCAAAGGCAG+TGG + chr7.4:33541729-33541748 None:intergenic 40.0%
TACCTCACTTTGTGATGTTG+AGG + chr7.4:33541825-33541844 None:intergenic 40.0%
! GGTAGCACCATCACTATTTT+GGG - chr7.4:33541893-33541912 MS.gene024359:CDS 40.0%
! GTAGCACCATCACTATTTTG+GGG - chr7.4:33541894-33541913 MS.gene024359:CDS 40.0%
! TGGTAGCACCATCACTATTT+TGG - chr7.4:33541892-33541911 MS.gene024359:CDS 40.0%
!! GCAGTGGTTGAGTTTTTCAA+AGG + chr7.4:33541713-33541732 None:intergenic 40.0%
!! GTGGTTGAGTTTTTCAAAGG+TGG + chr7.4:33541710-33541729 None:intergenic 40.0%
!! GTTGAGTTTTTCAAAGGTGG+TGG + chr7.4:33541707-33541726 None:intergenic 40.0%
AGACCACTGCCACCAATTAT+AGG + chr7.4:33541953-33541972 None:intergenic 45.0%
ATGTAAAGGGAGTGGTGAAG+AGG + chr7.4:33541529-33541548 None:intergenic 45.0%
GGTGAAGAGGAGAAAGAAGA+TGG + chr7.4:33541516-33541535 None:intergenic 45.0%
TGCCTCAACATCACAAAGTG+AGG - chr7.4:33541820-33541839 MS.gene024359:CDS 45.0%
! ATGCCTATAATTGGTGGCAG+TGG - chr7.4:33541947-33541966 MS.gene024359:CDS 45.0%
!!! GGTCTTTTCCGATTTGCTAG+AGG - chr7.4:33541968-33541987 MS.gene024359:CDS 45.0%
!! GCACCATCACTATTTTGGGG+AGG - chr7.4:33541897-33541916 MS.gene024359:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 33541497 33542075 33541497 ID=MS.gene024359
chr7.4 mRNA 33541497 33542075 33541497 ID=MS.gene024359.t1;Parent=MS.gene024359
chr7.4 exon 33541497 33542075 33541497 ID=MS.gene024359.t1.exon1;Parent=MS.gene024359.t1
chr7.4 CDS 33541497 33542075 33541497 ID=cds.MS.gene024359.t1;Parent=MS.gene024359.t1
Gene Sequence

>MS.gene024359

ATGTTCATCCAATTCTCCATCTTCTTTCTCCTCTTCACCACTCCCTTTACATCTTTAATCAAAGCAAAACAAGATGATGCCAATTTCATGCGTTCATTAGACCTCAAAGAATTAAATTTAGAGAATAAACAAGAGAAGCTAAGCCATTTAAAATTCTATTGGCATGACATAGTTAGTGGAAACAACCCTTCTTCAATACAAATTGTTCCACCACCTTTGAAAAACTCAACCACTGCCTTTGGTTTAGTTAACATGATTGAGAACCCTTTAACCTTAGGACTTGAATTGAGTTCCAAATTGGTTGGAAAAGCACAAGGGTTCTATGCCTCAACATCACAAAGTGAGGTAGACCTTATCATGGCTATGAATTTTGCTATTATTGAAGGAAAGTACAATGGTAGCACCATCACTATTTTGGGGAGGAATCCTGTTTATGATAAGGTTAGGGAAATGCCTATAATTGGTGGCAGTGGTCTTTTCCGATTTGCTAGAGGATATGCTCAACTTAGAACTCATTGGTTTTCATCCAAGACATATGATGCTATAGTTGAGTATAATATTTACGTGTTACATTATTAA
Protein sequence

>MS.gene024359.t1

MFIQFSIFFLLFTTPFTSLIKAKQDDANFMRSLDLKELNLENKQEKLSHLKFYWHDIVSGNNPSSIQIVPPPLKNSTTAFGLVNMIENPLTLGLELSSKLVGKAQGFYASTSQSEVDLIMAMNFAIIEGKYNGSTITILGRNPVYDKVREMPIIGGSGLFRFARGYAQLRTHWFSSKTYDAIVEYNIYVLHY