AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76095

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76095.t1 MTR_5g083270 95.610 205 9 0 1 205 1 205 2.50e-146 405
MS.gene76095.t1 MTR_3g071740 62.946 224 62 5 1 204 1 223 5.46e-84 248
MS.gene76095.t1 MTR_4g014460 64.327 171 54 4 39 205 42 209 1.17e-71 216
MS.gene76095.t1 MTR_7g070050 68.000 175 46 4 39 205 6 178 1.98e-70 213
MS.gene76095.t1 MTR_5g030500 55.488 164 66 3 46 203 44 206 2.16e-60 188
MS.gene76095.t1 MTR_8g027805 52.353 170 73 4 41 205 11 177 7.23e-58 181
MS.gene76095.t1 MTR_3g090980 51.534 163 73 3 44 203 19 178 2.94e-57 179
MS.gene76095.t1 MTR_1g028380 50.909 165 75 2 44 205 17 178 8.67e-57 178
MS.gene76095.t1 MTR_1g016480 52.795 161 69 3 46 202 39 196 1.86e-54 172
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76095.t1 AT2G40330 58.571 210 79 3 1 203 1 209 1.57e-81 242
MS.gene76095.t1 AT5G05440 60.396 202 74 3 1 200 1 198 7.60e-77 229
MS.gene76095.t1 AT2G38310 65.285 193 60 3 13 203 8 195 2.19e-73 221
MS.gene76095.t1 AT1G01360 52.147 163 72 2 46 205 21 180 1.79e-60 187
MS.gene76095.t1 AT4G27920 50.909 165 76 2 44 205 12 174 1.12e-57 180
MS.gene76095.t1 AT4G01026 52.201 159 70 3 50 205 27 182 3.45e-56 177
MS.gene76095.t1 AT5G53160 50.909 165 75 3 44 205 17 178 3.84e-56 176
MS.gene76095.t1 AT4G17870 50.610 164 77 2 45 205 16 178 3.80e-53 169
MS.gene76095.t1 AT2G26040 49.383 162 75 3 46 202 22 181 1.34e-50 162
MS.gene76095.t1 AT1G73000 47.619 168 77 3 46 202 37 204 9.96e-50 160
MS.gene76095.t1 AT5G46790 51.765 170 75 2 42 205 40 208 8.96e-49 159
MS.gene76095.t1 AT5G46790 51.765 170 75 2 42 205 40 208 8.96e-49 159
MS.gene76095.t1 AT5G45860 58.389 149 58 3 59 205 10 156 1.16e-46 151
MS.gene76095.t1 AT5G45870 56.954 151 62 3 56 205 7 155 2.10e-45 148
MS.gene76095.t1 AT4G18620 46.914 162 79 2 51 205 1 162 1.19e-35 123
MS.gene76095.t1 AT5G53160 46.667 105 53 2 44 148 17 118 5.38e-28 103

Find 59 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGTGGTTTGCAACCGTTTC+TGG 0.080678 5.2:+71287395 None:intergenic
CGTGAAGTTCGACTTGTTTC+CGG 0.131980 5.2:-71287197 MS.gene76095:CDS
AAACGGAGGCCTTGATGGTT+TGG 0.349101 5.2:+71287330 None:intergenic
GTGTTGTTGGTGGTGTTCAT+AGG 0.363891 5.2:-71287106 MS.gene76095:CDS
TCTAACACCGCCATGACTAA+TGG 0.405607 5.2:-71287488 MS.gene76095:CDS
GTTATTAGTTTCAGTGTTGT+TGG 0.408321 5.2:-71287119 MS.gene76095:CDS
TTCATAGGTGTAGGAATTAC+CGG 0.411086 5.2:-71287091 MS.gene76095:CDS
AGGCCTCCGTTTCAACTGTC+TGG 0.430513 5.2:-71287319 MS.gene76095:CDS
CGACACGCTTGAATTTGTTT+CGG 0.430906 5.2:+71287455 None:intergenic
AGTTGAAACGGAGGCCTTGA+TGG 0.442287 5.2:+71287325 None:intergenic
TCGGTGTAATTTGCAGTCAC+TGG 0.459352 5.2:-71286949 MS.gene76095:CDS
GGTGGTTTGCAACCGTTTCT+GGG 0.462922 5.2:+71287396 None:intergenic
AACGTAGTTGCCTCCGGTGA+TGG 0.485651 5.2:-71287239 MS.gene76095:CDS
AACCGTTTCTGTCCCAGAAA+CGG 0.488981 5.2:-71287408 MS.gene76095:CDS
AGCTGCAACGTAGTTGCCTC+CGG 0.500297 5.2:-71287245 MS.gene76095:CDS
GCTTGAAACGGCAGGTAGAC+CGG 0.502003 5.2:+71287178 None:intergenic
CAACCTCTCCATGCTTGAAA+CGG 0.516613 5.2:+71287166 None:intergenic
GGATCACGACGGAGTAGCAC+TGG 0.520709 5.2:+71287351 None:intergenic
AACCGTTTCTGGGACAGAAA+CGG 0.521454 5.2:+71287406 None:intergenic
CGTTTCAAGCATGGAGAGGT+TGG 0.529991 5.2:-71287165 MS.gene76095:CDS
TCGAACCGTTGAAATTGAAC+CGG 0.530260 5.2:+71287512 None:intergenic
CGTTGAAATTGAACCGGTGA+AGG 0.532412 5.2:+71287518 None:intergenic
ACCGACACGAATGCCATCAC+CGG 0.534492 5.2:+71287226 None:intergenic
AACGGACCAGACAGTTGAAA+CGG 0.535986 5.2:+71287313 None:intergenic
CAAAATAGAAATGCCTTCAC+CGG 0.537348 5.2:-71287531 None:intergenic
CTTCACCGGTTCAATTTCAA+CGG 0.537786 5.2:-71287517 MS.gene76095:CDS
CTCTCCATGCTTGAAACGGC+AGG 0.544665 5.2:+71287170 None:intergenic
ACAAAGTGTTTGTAGCCTTG+TGG 0.546590 5.2:+71287272 None:intergenic
TCTACCTGCCGTTTCAAGCA+TGG 0.550915 5.2:-71287174 MS.gene76095:CDS
CGGTCAGTGACGACGTTGCA+CGG 0.551799 5.2:-71287071 MS.gene76095:CDS
TTGGTGGTGTTCATAGGTGT+AGG 0.559793 5.2:-71287100 MS.gene76095:CDS
ATTAGTTTCAGTGTTGTTGG+TGG 0.561597 5.2:-71287116 MS.gene76095:CDS
CGTCGTGATCCAAACCATCA+AGG 0.571418 5.2:-71287339 MS.gene76095:CDS
ATACGTCGTTGATGTACCAC+AGG 0.575028 5.2:-71287015 MS.gene76095:CDS
CGTGCAACGTCGTCACTGAC+CGG 0.576112 5.2:+71287072 None:intergenic
CAACACTGAAACTAATAACA+TGG 0.585088 5.2:+71287123 None:intergenic
ACAGTTAATGCCATTAGTCA+TGG 0.586782 5.2:+71287478 None:intergenic
ACGTTGCACGGTGACGGTAA+CGG 0.591404 5.2:-71287059 MS.gene76095:CDS
GTGACGACGTTGCACGGTGA+CGG 0.594931 5.2:-71287065 MS.gene76095:CDS
AGCCTTGTGGATTGTCGAAG+CGG 0.601019 5.2:+71287285 None:intergenic
AACCACCACATGCACGTGGT+GGG 0.602296 5.2:-71287380 MS.gene76095:CDS
TCCGGTGATGGCATTCGTGT+CGG 0.606951 5.2:-71287227 MS.gene76095:CDS
TGTACCACAGGGTAACACTA+AGG 0.609377 5.2:-71287003 MS.gene76095:CDS
CGCCGCTTCGACAATCCACA+AGG 0.611657 5.2:-71287287 MS.gene76095:CDS
AAACCACCACATGCACGTGG+TGG 0.622421 5.2:-71287381 MS.gene76095:CDS
GTCCCACCACGTGCATGTGG+TGG 0.623392 5.2:+71287378 None:intergenic
CTGCCGTTTCAAGCATGGAG+AGG 0.630256 5.2:-71287169 MS.gene76095:CDS
ATTGTCGAAGCGGCGGACAA+CGG 0.630831 5.2:+71287295 None:intergenic
CTGCAAATTACACCGAACAA+TGG 0.632705 5.2:+71286956 None:intergenic
TGCAAACCACCACATGCACG+TGG 0.642151 5.2:-71287384 MS.gene76095:CDS
TTTGTCCCACCACGTGCATG+TGG 0.645948 5.2:+71287375 None:intergenic
TCTTCCTTAGTGTTACCCTG+TGG 0.656284 5.2:+71286999 None:intergenic
GACACGAATGCCATCACCGG+AGG 0.657865 5.2:+71287229 None:intergenic
CTTGTGGATTGTCGAAGCGG+CGG 0.689521 5.2:+71287288 None:intergenic
CTTGATGGTTTGGATCACGA+CGG 0.697791 5.2:+71287340 None:intergenic
GGACCAGACAGTTGAAACGG+AGG 0.712986 5.2:+71287316 None:intergenic
GTTAATGCCATTAGTCATGG+CGG 0.726535 5.2:+71287481 None:intergenic
TTGCACGGTGACGGTAACGG+AGG 0.729282 5.2:-71287056 MS.gene76095:CDS
TACGTCGTTGATGTACCACA+GGG 0.754269 5.2:-71287014 MS.gene76095:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CAACACTGAAACTAATAACA+TGG + chr5.2:71287327-71287346 None:intergenic 30.0%
! GTTATTAGTTTCAGTGTTGT+TGG - chr5.2:71287328-71287347 MS.gene76095:CDS 30.0%
!! GTTTTGTTGATACCATTGTT+CGG - chr5.2:71287479-71287498 MS.gene76095:CDS 30.0%
ACAGTTAATGCCATTAGTCA+TGG + chr5.2:71286972-71286991 None:intergenic 35.0%
TTCATAGGTGTAGGAATTAC+CGG - chr5.2:71287356-71287375 MS.gene76095:CDS 35.0%
! ATTAGTTTCAGTGTTGTTGG+TGG - chr5.2:71287331-71287350 MS.gene76095:CDS 35.0%
CTGCAAATTACACCGAACAA+TGG + chr5.2:71287494-71287513 None:intergenic 40.0%
GTTAATGCCATTAGTCATGG+CGG + chr5.2:71286969-71286988 None:intergenic 40.0%
TCGAACCGTTGAAATTGAAC+CGG + chr5.2:71286938-71286957 None:intergenic 40.0%
! ACAAAGTGTTTGTAGCCTTG+TGG + chr5.2:71287178-71287197 None:intergenic 40.0%
! CGACACGCTTGAATTTGTTT+CGG + chr5.2:71286995-71287014 None:intergenic 40.0%
!! CTTCACCGGTTCAATTTCAA+CGG - chr5.2:71286930-71286949 MS.gene76095:CDS 40.0%
AACCGTTTCTGTCCCAGAAA+CGG - chr5.2:71287039-71287058 MS.gene76095:CDS 45.0%
AACGGACCAGACAGTTGAAA+CGG + chr5.2:71287137-71287156 None:intergenic 45.0%
ATACGTCGTTGATGTACCAC+AGG - chr5.2:71287432-71287451 MS.gene76095:CDS 45.0%
CAACCTCTCCATGCTTGAAA+CGG + chr5.2:71287284-71287303 None:intergenic 45.0%
CGTTGAAATTGAACCGGTGA+AGG + chr5.2:71286932-71286951 None:intergenic 45.0%
TACGTCGTTGATGTACCACA+GGG - chr5.2:71287433-71287452 MS.gene76095:CDS 45.0%
TCTAACACCGCCATGACTAA+TGG - chr5.2:71286959-71286978 MS.gene76095:CDS 45.0%
TCTTCCTTAGTGTTACCCTG+TGG + chr5.2:71287451-71287470 None:intergenic 45.0%
TGTACCACAGGGTAACACTA+AGG - chr5.2:71287444-71287463 MS.gene76095:CDS 45.0%
! CGTGAAGTTCGACTTGTTTC+CGG - chr5.2:71287250-71287269 MS.gene76095:CDS 45.0%
! CTTGATGGTTTGGATCACGA+CGG + chr5.2:71287110-71287129 None:intergenic 45.0%
! TCGGTGTAATTTGCAGTCAC+TGG - chr5.2:71287498-71287517 MS.gene76095:CDS 45.0%
!! AACCGTTTCTGGGACAGAAA+CGG + chr5.2:71287044-71287063 None:intergenic 45.0%
!! GTGTTGTTGGTGGTGTTCAT+AGG - chr5.2:71287341-71287360 MS.gene76095:CDS 45.0%
!! TTGGTGGTGTTCATAGGTGT+AGG - chr5.2:71287347-71287366 MS.gene76095:CDS 45.0%
AGTTGAAACGGAGGCCTTGA+TGG + chr5.2:71287125-71287144 None:intergenic 50.0%
CGTCGTGATCCAAACCATCA+AGG - chr5.2:71287108-71287127 MS.gene76095:CDS 50.0%
CGTTTCAAGCATGGAGAGGT+TGG - chr5.2:71287282-71287301 MS.gene76095:CDS 50.0%
! AAACGGAGGCCTTGATGGTT+TGG + chr5.2:71287120-71287139 None:intergenic 50.0%
! AGCCTTGTGGATTGTCGAAG+CGG + chr5.2:71287165-71287184 None:intergenic 50.0%
! GGTGGTTTGCAACCGTTTCT+GGG + chr5.2:71287054-71287073 None:intergenic 50.0%
! TCTACCTGCCGTTTCAAGCA+TGG - chr5.2:71287273-71287292 MS.gene76095:CDS 50.0%
! TGGTGGTTTGCAACCGTTTC+TGG + chr5.2:71287055-71287074 None:intergenic 50.0%
AAACCACCACATGCACGTGG+TGG - chr5.2:71287066-71287085 MS.gene76095:CDS 55.0%
AACCACCACATGCACGTGGT+GGG - chr5.2:71287067-71287086 MS.gene76095:CDS 55.0%
AACGTAGTTGCCTCCGGTGA+TGG - chr5.2:71287208-71287227 MS.gene76095:CDS 55.0%
ACCGACACGAATGCCATCAC+CGG + chr5.2:71287224-71287243 None:intergenic 55.0%
AGCTGCAACGTAGTTGCCTC+CGG - chr5.2:71287202-71287221 MS.gene76095:CDS 55.0%
AGGCCTCCGTTTCAACTGTC+TGG - chr5.2:71287128-71287147 MS.gene76095:CDS 55.0%
ATTGTCGAAGCGGCGGACAA+CGG + chr5.2:71287155-71287174 None:intergenic 55.0%
CTCTCCATGCTTGAAACGGC+AGG + chr5.2:71287280-71287299 None:intergenic 55.0%
GCTTGAAACGGCAGGTAGAC+CGG + chr5.2:71287272-71287291 None:intergenic 55.0%
GGACCAGACAGTTGAAACGG+AGG + chr5.2:71287134-71287153 None:intergenic 55.0%
TGCAAACCACCACATGCACG+TGG - chr5.2:71287063-71287082 MS.gene76095:CDS 55.0%
TTTGTCCCACCACGTGCATG+TGG + chr5.2:71287075-71287094 None:intergenic 55.0%
! ACGTTGCACGGTGACGGTAA+CGG - chr5.2:71287388-71287407 MS.gene76095:CDS 55.0%
! CTGCCGTTTCAAGCATGGAG+AGG - chr5.2:71287278-71287297 MS.gene76095:CDS 55.0%
! CTTGTGGATTGTCGAAGCGG+CGG + chr5.2:71287162-71287181 None:intergenic 55.0%
! TCCGGTGATGGCATTCGTGT+CGG - chr5.2:71287220-71287239 MS.gene76095:CDS 55.0%
CGCCGCTTCGACAATCCACA+AGG - chr5.2:71287160-71287179 MS.gene76095:CDS 60.0%
CGGTCAGTGACGACGTTGCA+CGG - chr5.2:71287376-71287395 MS.gene76095:CDS 60.0%
CGTGCAACGTCGTCACTGAC+CGG + chr5.2:71287378-71287397 None:intergenic 60.0%
GACACGAATGCCATCACCGG+AGG + chr5.2:71287221-71287240 None:intergenic 60.0%
GGATCACGACGGAGTAGCAC+TGG + chr5.2:71287099-71287118 None:intergenic 60.0%
GTGACGACGTTGCACGGTGA+CGG - chr5.2:71287382-71287401 MS.gene76095:CDS 60.0%
! TTGCACGGTGACGGTAACGG+AGG - chr5.2:71287391-71287410 MS.gene76095:CDS 60.0%
GTCCCACCACGTGCATGTGG+TGG + chr5.2:71287072-71287091 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 71286926 71287543 71286926 ID=MS.gene76095
chr5.2 mRNA 71286926 71287543 71286926 ID=MS.gene76095.t1;Parent=MS.gene76095
chr5.2 exon 71286926 71287543 71286926 ID=MS.gene76095.t1.exon1;Parent=MS.gene76095.t1
chr5.2 CDS 71286926 71287543 71286926 ID=cds.MS.gene76095.t1;Parent=MS.gene76095.t1
Gene Sequence

>MS.gene76095

ATGCCTTCACCGGTTCAATTTCAACGGTTCGATTCTAACACCGCCATGACTAATGGCATTAACTGTCCGAAACAAATTCAAGCGTGTCGTTACGCGCTTTCTTCTTTAAAATCAACCGTTTCTGTCCCAGAAACGGTTGCAAACCACCACATGCACGTGGTGGGACAAAACCAGTGCTACTCCGTCGTGATCCAAACCATCAAGGCCTCCGTTTCAACTGTCTGGTCCGTTGTCCGCCGCTTCGACAATCCACAAGGCTACAAACACTTTGTTAAAAGCTGCAACGTAGTTGCCTCCGGTGATGGCATTCGTGTCGGTGCTCTTCGTGAAGTTCGACTTGTTTCCGGTCTACCTGCCGTTTCAAGCATGGAGAGGTTGGATATTCTTGATGAAGAACGCCATGTTATTAGTTTCAGTGTTGTTGGTGGTGTTCATAGGTGTAGGAATTACCGGTCAGTGACGACGTTGCACGGTGACGGTAACGGAGGAACAGTTGTCATTGAATCATACGTCGTTGATGTACCACAGGGTAACACTAAGGAAGAAACATGTAGTTTTGTTGATACCATTGTTCGGTGTAATTTGCAGTCACTGGCTCAGATCGCAGAGAAACTGTGA
Protein sequence

>MS.gene76095.t1

MPSPVQFQRFDSNTAMTNGINCPKQIQACRYALSSLKSTVSVPETVANHHMHVVGQNQCYSVVIQTIKASVSTVWSVVRRFDNPQGYKHFVKSCNVVASGDGIRVGALREVRLVSGLPAVSSMERLDILDEERHVISFSVVGGVHRCRNYRSVTTLHGDGNGGTVVIESYVVDVPQGNTKEETCSFVDTIVRCNLQSLAQIAEKL