AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene01676

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01676.t1 MTR_2g019840 87.129 202 26 0 1 202 184 385 2.15e-125 359
MS.gene01676.t1 MTR_2g019810 74.093 193 50 0 1 193 172 364 1.88e-100 295
MS.gene01676.t1 MTR_2g436400 47.938 194 97 3 1 192 190 381 2.55e-53 175
MS.gene01676.t1 MTR_4g119550 44.500 200 107 3 1 198 193 390 1.61e-52 173
MS.gene01676.t1 MTR_2g437030 45.876 194 101 3 1 192 269 460 3.90e-48 163
MS.gene01676.t1 MTR_2g437960 47.179 195 99 3 1 193 199 391 4.16e-48 162
MS.gene01676.t1 MTR_2g437960 47.179 195 99 3 1 193 199 391 5.61e-48 162
MS.gene01676.t1 MTR_2g438010 44.615 195 104 3 1 193 216 408 9.76e-47 159
MS.gene01676.t1 MTR_2g436440 42.564 195 108 3 1 193 189 381 2.81e-46 157
MS.gene01676.t1 MTR_2g437240 45.128 195 103 3 1 193 211 403 5.30e-46 157
MS.gene01676.t1 MTR_2g437990 44.615 195 104 3 1 193 195 387 6.20e-46 157
MS.gene01676.t1 MTR_2g437080 46.154 195 101 3 1 193 183 375 1.54e-45 155
MS.gene01676.t1 MTR_2g438020 47.179 195 99 3 1 193 250 442 8.68e-45 155
MS.gene01676.t1 MTR_2g437060 46.316 190 98 3 1 188 198 385 8.75e-45 153
MS.gene01676.t1 MTR_2g437120 45.408 196 104 2 1 195 197 390 2.10e-44 152
MS.gene01676.t1 MTR_2g076320 44.162 197 106 3 1 195 196 390 2.81e-44 152
MS.gene01676.t1 MTR_2g437940 45.641 195 102 3 1 193 167 359 2.94e-44 151
MS.gene01676.t1 MTR_2g437100 46.354 192 99 3 1 190 208 397 1.29e-43 150
MS.gene01676.t1 MTR_2g437200 46.842 190 97 3 1 188 211 398 1.54e-43 150
MS.gene01676.t1 MTR_2g437020 43.719 199 109 3 1 197 182 379 6.09e-43 148
MS.gene01676.t1 MTR_2g437160 43.147 197 108 3 1 195 208 402 6.12e-43 149
MS.gene01676.t1 MTR_2g437170 45.263 190 100 3 1 188 203 390 1.31e-42 148
MS.gene01676.t1 MTR_2g437150 43.655 197 107 3 1 195 203 397 1.92e-42 147
MS.gene01676.t1 MTR_2g437040 41.237 194 110 3 1 192 183 374 2.13e-42 146
MS.gene01676.t1 MTR_2g436460 44.845 194 102 4 1 191 188 379 5.48e-42 145
MS.gene01676.t1 MTR_2g437160 40.394 203 105 3 2 188 102 304 1.04e-41 143
MS.gene01676.t1 MTR_2g437090 47.500 160 82 2 35 192 3 162 4.38e-41 137
MS.gene01676.t1 MTR_2g437260 36.453 203 127 2 1 201 177 379 8.42e-40 140
MS.gene01676.t1 MTR_2g437180 44.737 190 99 4 1 188 195 380 1.34e-38 137
MS.gene01676.t1 MTR_2g437130 39.487 195 114 3 1 193 184 376 3.00e-38 135
MS.gene01676.t1 MTR_4g120380 41.451 193 99 4 1 186 185 370 5.89e-36 129
MS.gene01676.t1 MTR_4g119580 41.489 188 106 3 1 186 185 370 9.96e-35 126
MS.gene01676.t1 MTR_3g450500 35.233 193 121 3 1 190 183 374 5.13e-32 119
MS.gene01676.t1 MTR_4g007490 36.126 191 120 2 1 189 181 371 1.30e-31 118
MS.gene01676.t1 MTR_4g120380 40.588 170 87 4 1 163 185 347 3.34e-29 112
MS.gene01676.t1 MTR_2g019830 81.159 69 13 0 125 193 136 204 1.87e-27 103
MS.gene01676.t1 MTR_4g119570 36.170 188 83 4 1 186 77 229 6.29e-23 92.4
MS.gene01676.t1 MTR_8g080990 30.108 186 124 3 1 182 185 368 1.10e-16 77.4
MS.gene01676.t1 MTR_8g081000 26.984 189 134 3 1 186 198 385 3.46e-15 73.2
MS.gene01676.t1 MTR_8g081000 26.984 189 134 3 1 186 198 385 3.89e-15 73.2
MS.gene01676.t1 MTR_8g081000 26.984 189 134 3 1 186 198 385 3.96e-15 73.2
MS.gene01676.t1 MTR_3g085240 30.370 135 77 2 46 180 132 249 1.48e-11 62.0
MS.gene01676.t1 MTR_2g436380 47.692 65 33 1 35 98 3 67 2.80e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01676.t1 AT5G07900 39.683 189 109 3 1 185 212 399 5.03e-40 141
MS.gene01676.t1 AT1G21150 29.843 191 131 2 2 189 164 354 1.80e-23 96.3
MS.gene01676.t1 AT1G21150 29.843 191 131 2 2 189 200 390 2.64e-23 96.3
MS.gene01676.t1 AT1G21150 29.843 191 131 2 2 189 264 454 4.61e-23 95.9
MS.gene01676.t1 AT1G62010 30.319 188 92 5 1 151 176 361 7.61e-16 75.5
MS.gene01676.t1 AT1G61990 26.667 225 124 6 1 185 185 408 2.28e-14 71.2
MS.gene01676.t1 AT1G61990 26.667 225 124 6 1 185 185 408 2.28e-14 71.2
MS.gene01676.t1 AT1G61970 25.221 226 126 7 1 185 192 415 2.92e-14 70.9
MS.gene01676.t1 AT1G61970 25.221 226 126 7 1 185 192 415 2.92e-14 70.9
MS.gene01676.t1 AT1G61970 25.221 226 126 7 1 185 192 415 2.92e-14 70.9
MS.gene01676.t1 AT1G61970 25.221 226 126 7 1 185 192 415 2.92e-14 70.9
MS.gene01676.t1 AT1G61970 25.221 226 126 7 1 185 192 415 2.92e-14 70.9
MS.gene01676.t1 AT1G61970 25.221 226 126 7 1 185 192 415 2.92e-14 70.9
MS.gene01676.t1 AT1G61970 25.221 226 126 7 1 185 192 415 2.92e-14 70.9
MS.gene01676.t1 AT1G61960 30.000 120 80 1 70 185 332 451 2.91e-12 65.1
MS.gene01676.t1 AT5G64950 28.866 194 129 4 1 186 184 376 5.45e-12 64.3

Find 30 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAACAAACACTCAGAAATT+TGG 0.172074 2.4:+66920625 None:intergenic
ATTCAAATCCTGCTTCAAAA+TGG 0.214854 2.4:-66921098 MS.gene01676:CDS
TTTGATTAAGGATGCTAAAT+TGG 0.230774 2.4:-66920658 MS.gene01676:CDS
AACAATGAAAACAGTTGTTT+TGG 0.284531 2.4:+66920962 None:intergenic
ACCAATTTCGAAACAAAATA+AGG 0.302219 2.4:+66921057 None:intergenic
TTGGTGGAAGTAAATGAATT+AGG 0.343678 2.4:-66920993 MS.gene01676:CDS
TTCAAATCCTGCTTCAAAAT+GGG 0.347056 2.4:-66921097 MS.gene01676:CDS
TTGAAATTTCTTGAGTCTAA+AGG 0.377057 2.4:-66920681 MS.gene01676:CDS
GATTGATGTGTATAAGAAAT+GGG 0.377187 2.4:-66920895 MS.gene01676:CDS
TGAGTCTAAAGGTTTGATTA+AGG 0.378829 2.4:-66920670 MS.gene01676:CDS
AGATTGATGTGTATAAGAAA+TGG 0.401224 2.4:-66920896 MS.gene01676:CDS
ATTAAGGATGCTAAATTGGC+TGG 0.417571 2.4:-66920654 MS.gene01676:CDS
TTTGCTGAGTCTTGAGAAAA+GGG 0.428056 2.4:-66920724 MS.gene01676:CDS
GACTCAGCAAAAGAAGTATT+GGG 0.431337 2.4:+66920736 None:intergenic
AGACTCAGCAAAAGAAGTAT+TGG 0.433507 2.4:+66920735 None:intergenic
AATGCCTTCTCAAATCTTGA+AGG 0.433670 2.4:+66921014 None:intergenic
GAAGTTTGTGTATTGCTTCG+AGG 0.509974 2.4:-66920598 MS.gene01676:CDS
TTCAAGATTTGAGAAGGCAT+TGG 0.516289 2.4:-66921012 MS.gene01676:CDS
GGCATCTGTTCGTAAAATTG+AGG 0.523840 2.4:-66920817 MS.gene01676:CDS
AAGATTTGAGAAGGCATTGG+TGG 0.528058 2.4:-66921009 MS.gene01676:CDS
TCAAATCCTGCTTCAAAATG+GGG 0.541281 2.4:-66921096 MS.gene01676:CDS
GAAGTATCCATGGTGTATGT+TGG 0.562557 2.4:-66920838 MS.gene01676:CDS
CATCAATCTTCCTTTCCCAA+AGG 0.572836 2.4:+66920910 None:intergenic
AATTTCAAGACAAAAGCTCT+AGG 0.592288 2.4:+66920696 None:intergenic
GAAGCCTTCAAGATTTGAGA+AGG 0.601085 2.4:-66921018 MS.gene01676:CDS
AAACACTCAGAAATTTGGAA+AGG 0.625518 2.4:+66920630 None:intergenic
AAAATAAGGACTTTAGACTC+AGG 0.629406 2.4:+66921071 None:intergenic
ATTGATGTGTATAAGAAATG+GGG 0.652614 2.4:-66920894 MS.gene01676:CDS
ACAGATGCCAACATACACCA+TGG 0.670800 2.4:+66920831 None:intergenic
ATGTGTATAAGAAATGGGGT+TGG 0.700509 2.4:-66920890 MS.gene01676:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTAATAAAAAAATCCTT+TGG - chr2.4:66920690-66920709 MS.gene01676:CDS 10.0%
!! AATTAATAAAAAAATCCTTT+GGG - chr2.4:66920691-66920710 MS.gene01676:CDS 10.0%
! AAAACAAACACTCAGAAATT+TGG + chr2.4:66920994-66921013 None:intergenic 25.0%
! ACCAATTTCGAAACAAAATA+AGG + chr2.4:66920562-66920581 None:intergenic 25.0%
! AGAAAAAAGATGTTTCCAAT+AGG - chr2.4:66921074-66921093 MS.gene01676:CDS 25.0%
! AGATTGATGTGTATAAGAAA+TGG - chr2.4:66920720-66920739 MS.gene01676:CDS 25.0%
! ATTGATGTGTATAAGAAATG+GGG - chr2.4:66920722-66920741 MS.gene01676:CDS 25.0%
! GATTGATGTGTATAAGAAAT+GGG - chr2.4:66920721-66920740 MS.gene01676:CDS 25.0%
! TTGAAATTTCTTGAGTCTAA+AGG - chr2.4:66920935-66920954 MS.gene01676:CDS 25.0%
! TTTGATTAAGGATGCTAAAT+TGG - chr2.4:66920958-66920977 MS.gene01676:CDS 25.0%
!! AACAATGAAAACAGTTGTTT+TGG + chr2.4:66920657-66920676 None:intergenic 25.0%
!! ATAAAAAAATCCTTTGGGAA+AGG - chr2.4:66920696-66920715 MS.gene01676:CDS 25.0%
!!! ACAATGAAAACAGTTGTTTT+GGG + chr2.4:66920656-66920675 None:intergenic 25.0%
!!! ATCTTTTTTCAACATCCTAT+TGG + chr2.4:66921092-66921111 None:intergenic 25.0%
!!! GAAATTTTTTGTTGATCACA+TGG - chr2.4:66920829-66920848 MS.gene01676:CDS 25.0%
!!! TCCTTATTTTGTTTCGAAAT+TGG - chr2.4:66920558-66920577 MS.gene01676:CDS 25.0%
AAAATAAGGACTTTAGACTC+AGG + chr2.4:66920548-66920567 None:intergenic 30.0%
AAACACTCAGAAATTTGGAA+AGG + chr2.4:66920989-66921008 None:intergenic 30.0%
AATTTCAAGACAAAAGCTCT+AGG + chr2.4:66920923-66920942 None:intergenic 30.0%
ATTCAAATCCTGCTTCAAAA+TGG - chr2.4:66920518-66920537 MS.gene01676:CDS 30.0%
TGAGTCTAAAGGTTTGATTA+AGG - chr2.4:66920946-66920965 MS.gene01676:CDS 30.0%
TTCAAATCCTGCTTCAAAAT+GGG - chr2.4:66920519-66920538 MS.gene01676:CDS 30.0%
TTGGTGGAAGTAAATGAATT+AGG - chr2.4:66920623-66920642 MS.gene01676:CDS 30.0%
! TTTTTGTTGATCACATGGAT+TGG - chr2.4:66920834-66920853 MS.gene01676:CDS 30.0%
!! CAATGAAAACAGTTGTTTTG+GGG + chr2.4:66920655-66920674 None:intergenic 30.0%
AATGCCTTCTCAAATCTTGA+AGG + chr2.4:66920605-66920624 None:intergenic 35.0%
ATGTGTATAAGAAATGGGGT+TGG - chr2.4:66920726-66920745 MS.gene01676:CDS 35.0%
ATTAAGGATGCTAAATTGGC+TGG - chr2.4:66920962-66920981 MS.gene01676:CDS 35.0%
TCAAATCCTGCTTCAAAATG+GGG - chr2.4:66920520-66920539 MS.gene01676:CDS 35.0%
TTTGCTGAGTCTTGAGAAAA+GGG - chr2.4:66920892-66920911 MS.gene01676:CDS 35.0%
! AGACTCAGCAAAAGAAGTAT+TGG + chr2.4:66920884-66920903 None:intergenic 35.0%
! TTCAAGATTTGAGAAGGCAT+TGG - chr2.4:66920604-66920623 MS.gene01676:CDS 35.0%
! TTTTGCTGAGTCTTGAGAAA+AGG - chr2.4:66920891-66920910 MS.gene01676:CDS 35.0%
!! GACTCAGCAAAAGAAGTATT+GGG + chr2.4:66920883-66920902 None:intergenic 35.0%
!!! CAGCATTTTTGAAGTATCCA+TGG - chr2.4:66920768-66920787 MS.gene01676:CDS 35.0%
CATCAATCTTCCTTTCCCAA+AGG + chr2.4:66920709-66920728 None:intergenic 40.0%
GAAGCCTTCAAGATTTGAGA+AGG - chr2.4:66920598-66920617 MS.gene01676:CDS 40.0%
GAAGTTTGTGTATTGCTTCG+AGG - chr2.4:66921018-66921037 MS.gene01676:CDS 40.0%
GGCATCTGTTCGTAAAATTG+AGG - chr2.4:66920799-66920818 MS.gene01676:CDS 40.0%
! GAAGTATCCATGGTGTATGT+TGG - chr2.4:66920778-66920797 MS.gene01676:CDS 40.0%
!! AAGATTTGAGAAGGCATTGG+TGG - chr2.4:66920607-66920626 MS.gene01676:CDS 40.0%
ACAGATGCCAACATACACCA+TGG + chr2.4:66920788-66920807 None:intergenic 45.0%
! GGGTGTTTTGCAAGCACAAT+AGG + chr2.4:66920863-66920882 None:intergenic 45.0%
!!! CAGGAACCCCATTTTGAAGC+AGG + chr2.4:66920529-66920548 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 66920515 66921123 66920515 ID=MS.gene01676
chr2.4 mRNA 66920515 66921123 66920515 ID=MS.gene01676.t1;Parent=MS.gene01676
chr2.4 exon 66920515 66921123 66920515 ID=MS.gene01676.t1.exon1;Parent=MS.gene01676.t1
chr2.4 CDS 66920515 66921123 66920515 ID=cds.MS.gene01676.t1;Parent=MS.gene01676.t1
Gene Sequence

>MS.gene01676

AATATTCAAATCCTGCTTCAAAATGGGGTTCCTGAGTCTAAAGTCCTTATTTTGTTTCGAAATTGGTATTCTATATTCGCTGAGAAGCCTTCAAGATTTGAGAAGGCATTGGTGGAAGTAAATGAATTAGGATTTAACCCCAAAACAACTGTTTTCATTGTTGCACTGCGTGCTAAAATTAATAAAAAAATCCTTTGGGAAAGGAAGATTGATGTGTATAAGAAATGGGGTTGGTCTGAAGAAAGTTTTGTCTCAGCATTTTTGAAGTATCCATGGTGTATGTTGGCATCTGTTCGTAAAATTGAGGCAGCAATGAAATTTTTTGTTGATCACATGGATTGGAAGCCTATTGTGCTTGCAAAACACCCAATACTTCTTTTGCTGAGTCTTGAGAAAAGGGTTATTCCTAGAGCTTTTGTCTTGAAATTTCTTGAGTCTAAAGGTTTGATTAAGGATGCTAAATTGGCTGGACCTTTCCAAATTTCTGAGTGTTTGTTTTTGAAGAAGTTTGTGTATTGCTTCGAGGAAGAAGCTTCTCAACTGTTGAAGTTGTACGAAGAGAAAAAAGATGTTTCCAATAGGATGTTGAAAAAAGATTTTAAGCCGTGA
Protein sequence

>MS.gene01676.t1

NIQILLQNGVPESKVLILFRNWYSIFAEKPSRFEKALVEVNELGFNPKTTVFIVALRAKINKKILWERKIDVYKKWGWSEESFVSAFLKYPWCMLASVRKIEAAMKFFVDHMDWKPIVLAKHPILLLLSLEKRVIPRAFVLKFLESKGLIKDAKLAGPFQISECLFLKKFVYCFEEEASQLLKLYEEKKDVSNRMLKKDFKP