AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene63747

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63747.t1 MTR_2g076400 98.324 179 2 1 1 179 1 178 1.02e-130 363
MS.gene63747.t1 MTR_2g092950 77.707 157 24 1 1 157 1 146 6.13e-89 258
MS.gene63747.t1 MTR_4g079930 86.508 126 17 0 32 157 27 152 1.68e-83 244
MS.gene63747.t1 MTR_2g016110 69.540 174 53 0 2 175 3 176 1.31e-82 242
MS.gene63747.t1 MTR_4g094428 76.296 135 32 0 31 165 43 177 2.58e-77 231
MS.gene63747.t1 MTR_5g072510 74.074 135 35 0 33 167 36 170 6.73e-76 227
MS.gene63747.t1 MTR_8g086350 81.818 132 24 0 26 157 23 154 2.44e-72 216
MS.gene63747.t1 MTR_1g442860 76.000 125 30 0 34 158 65 189 4.40e-70 211
MS.gene63747.t1 MTR_1g075990 73.611 144 38 0 32 175 51 194 1.08e-68 207
MS.gene63747.t1 MTR_3g031830 74.627 134 34 0 34 167 42 175 4.99e-67 204
MS.gene63747.t1 MTR_7g097030 75.758 132 32 0 33 164 63 194 2.71e-65 199
MS.gene63747.t1 MTR_1g069825 75.573 131 32 0 34 164 52 182 1.36e-64 198
MS.gene63747.t1 MTR_7g115700 66.667 135 40 3 32 163 25 157 4.78e-63 192
MS.gene63747.t1 MTR_1g080210 76.000 125 30 0 34 158 40 164 3.43e-61 188
MS.gene63747.t1 MTR_1g114020 68.889 45 14 0 33 77 70 114 4.01e-16 72.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63747.t1 AT2G42610 85.600 125 18 0 33 157 24 148 8.67e-82 240
MS.gene63747.t1 AT2G42610 85.600 125 18 0 33 157 24 148 8.67e-82 240
MS.gene63747.t1 AT1G78815 72.956 159 40 1 2 157 5 163 2.28e-79 234
MS.gene63747.t1 AT1G07090 77.273 132 30 0 33 164 30 161 1.18e-77 230
MS.gene63747.t1 AT1G16910 67.073 164 38 1 3 166 8 155 3.28e-74 220
MS.gene63747.t1 AT5G58500 77.444 133 29 1 33 164 18 150 4.42e-74 221
MS.gene63747.t1 AT4G18610 69.935 153 40 2 33 179 36 188 3.65e-73 218
MS.gene63747.t1 AT2G31160 75.573 131 32 0 34 164 54 184 2.59e-66 202
MS.gene63747.t1 AT3G23290 78.740 127 27 0 32 158 46 172 5.56e-66 201
MS.gene63747.t1 AT5G28490 75.573 131 32 0 33 163 24 154 6.24e-65 197
MS.gene63747.t1 AT3G04510 74.615 130 33 0 34 163 33 162 6.89e-65 198

Find 38 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAAGGTACTTGGATCAATT+TGG 0.186025 2.1:+23455958 MS.gene63747:CDS
GGAAGCCTTGATGCACTTAT+TGG 0.224973 2.1:+23456069 MS.gene63747:CDS
AGAAGAGATTGGAACACTTT+TGG 0.264015 2.1:+23455865 MS.gene63747:CDS
CTAGCAAAAGGATTAGTTTC+AGG 0.303544 2.1:-23456129 None:intergenic
AGAGCTGCTTATGAAGAAAA+TGG 0.368567 2.1:+23456099 MS.gene63747:CDS
CAAATTGATCCAAGTACCTT+AGG 0.370819 2.1:-23455957 None:intergenic
TCTTGAATTCCTAAGGTACT+TGG 0.381797 2.1:+23455948 MS.gene63747:CDS
CTCACGAAGATAGATTCTTA+TGG 0.388339 2.1:-23456157 None:intergenic
TTGTCCTCTAAAACAAGCTT+GGG 0.400385 2.1:+23456047 MS.gene63747:CDS
GGGTTGCAATTAAACATAAC+GGG 0.414363 2.1:+23456238 MS.gene63747:CDS
AAAGGAAAAGACATAGTAGA+AGG 0.430124 2.1:+23455757 MS.gene63747:CDS
AGTACATGGTCCGGGTGGTT+CGG 0.455308 2.1:-23456025 None:intergenic
TAGAGGACAAGTACATGGTC+CGG 0.464513 2.1:-23456034 None:intergenic
CTACAATTTGAAAGTGCAAC+TGG 0.465538 2.1:-23455913 None:intergenic
TTACTGCATAGGTAAATTTG+AGG 0.478981 2.1:-23456265 None:intergenic
CTTGTCCTCTAAAACAAGCT+TGG 0.483002 2.1:+23456046 MS.gene63747:CDS
GGATCATCAAGATCTTCAAT+AGG 0.489614 2.1:+23455778 MS.gene63747:CDS
CTTATGGAACCACTAGCAAA+AGG 0.491890 2.1:-23456141 None:intergenic
AGTCACAAAAGAGAAGAGAT+TGG 0.497858 2.1:+23455854 MS.gene63747:CDS
ACCATGTTCTTGAATTCCTA+AGG 0.512890 2.1:+23455941 MS.gene63747:CDS
TGTGACTCGTATCGACTAAG+TGG 0.527013 2.1:-23455838 None:intergenic
ATCTTCCAATAAGTGCATCA+AGG 0.536647 2.1:-23456074 None:intergenic
AGGGTTGCAATTAAACATAA+CGG 0.538901 2.1:+23456237 MS.gene63747:CDS
AATGATAAACTTTACTGCAT+AGG 0.540046 2.1:-23456276 None:intergenic
AAAACAAAAGTGCACTTACA+AGG 0.545619 2.1:+23455982 MS.gene63747:CDS
AGAGGACAAGTACATGGTCC+GGG 0.548173 2.1:-23456033 None:intergenic
ACCTTAGGAATTCAAGAACA+TGG 0.577239 2.1:-23455942 None:intergenic
TTCGGACAAACCGAACCACC+CGG 0.578755 2.1:+23456015 MS.gene63747:CDS
GGTGAGAGATTCTCAAGCTA+AGG 0.580040 2.1:+23456179 MS.gene63747:CDS
GATTCTCAAGCTAAGGCTAG+AGG 0.580908 2.1:+23456186 MS.gene63747:CDS
TCAAGATCTTCAATAGGTGA+TGG 0.598004 2.1:+23455784 MS.gene63747:CDS
AAAGAAGATATGTCCAACAA+AGG 0.618073 2.1:+23455739 None:intergenic
GCTGCTTATGAAGAAAATGG+TGG 0.637680 2.1:+23456102 MS.gene63747:CDS
CATAAGAATCTATCTTCGTG+AGG 0.662614 2.1:+23456158 MS.gene63747:CDS
CAATTTGAAAGTGCAACTGG+TGG 0.691757 2.1:-23455910 None:intergenic
GGTTGCAATTAAACATAACG+GGG 0.711991 2.1:+23456239 MS.gene63747:CDS
TGTCCTCTAAAACAAGCTTG+GGG 0.721618 2.1:+23456048 MS.gene63747:CDS
GGACAAGTACATGGTCCGGG+TGG 0.729904 2.1:-23456030 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTCTTCTTTTTCTTCTTGTA+AGG - chr2.1:23456216-23456235 None:intergenic 25.0%
!!! TTACAAGGTTGTTTGTTTTT+CGG + chr2.1:23455997-23456016 MS.gene63747:CDS 25.0%
AAAGGAAAAGACATAGTAGA+AGG + chr2.1:23455757-23455776 MS.gene63747:CDS 30.0%
ACAAGAAGAAAAAGAAGAAG+AGG + chr2.1:23456217-23456236 MS.gene63747:CDS 30.0%
AGGGTTGCAATTAAACATAA+CGG + chr2.1:23456237-23456256 MS.gene63747:CDS 30.0%
CAAGAAGAAAAAGAAGAAGA+GGG + chr2.1:23456218-23456237 MS.gene63747:CDS 30.0%
TTACTGCATAGGTAAATTTG+AGG - chr2.1:23456268-23456287 None:intergenic 30.0%
! AAAACAAAAGTGCACTTACA+AGG + chr2.1:23455982-23456001 MS.gene63747:CDS 30.0%
! ACACTTTTGGACAATACTTA+AGG + chr2.1:23455878-23455897 MS.gene63747:CDS 30.0%
! TACTATGTCTTTTCCTTTGT+TGG - chr2.1:23455755-23455774 None:intergenic 30.0%
ACCATGTTCTTGAATTCCTA+AGG + chr2.1:23455941-23455960 MS.gene63747:CDS 35.0%
ACCTTAGGAATTCAAGAACA+TGG - chr2.1:23455945-23455964 None:intergenic 35.0%
AGAGCTGCTTATGAAGAAAA+TGG + chr2.1:23456099-23456118 MS.gene63747:CDS 35.0%
AGTCACAAAAGAGAAGAGAT+TGG + chr2.1:23455854-23455873 MS.gene63747:CDS 35.0%
ATCTTCCAATAAGTGCATCA+AGG - chr2.1:23456077-23456096 None:intergenic 35.0%
CAAATTGATCCAAGTACCTT+AGG - chr2.1:23455960-23455979 None:intergenic 35.0%
CATAAGAATCTATCTTCGTG+AGG + chr2.1:23456158-23456177 MS.gene63747:CDS 35.0%
CTCACGAAGATAGATTCTTA+TGG - chr2.1:23456160-23456179 None:intergenic 35.0%
GGATCATCAAGATCTTCAAT+AGG + chr2.1:23455778-23455797 MS.gene63747:CDS 35.0%
GGGTTGCAATTAAACATAAC+GGG + chr2.1:23456238-23456257 MS.gene63747:CDS 35.0%
GGTTGCAATTAAACATAACG+GGG + chr2.1:23456239-23456258 MS.gene63747:CDS 35.0%
TCAAGATCTTCAATAGGTGA+TGG + chr2.1:23455784-23455803 MS.gene63747:CDS 35.0%
! AGAAGAGATTGGAACACTTT+TGG + chr2.1:23455865-23455884 MS.gene63747:CDS 35.0%
! CTAAGGTACTTGGATCAATT+TGG + chr2.1:23455958-23455977 MS.gene63747:CDS 35.0%
! CTACAATTTGAAAGTGCAAC+TGG - chr2.1:23455916-23455935 None:intergenic 35.0%
! GAAACTAATCCTTTTGCTAG+TGG + chr2.1:23456132-23456151 MS.gene63747:CDS 35.0%
! TCTTGAATTCCTAAGGTACT+TGG + chr2.1:23455948-23455967 MS.gene63747:CDS 35.0%
!! CTAGCAAAAGGATTAGTTTC+AGG - chr2.1:23456132-23456151 None:intergenic 35.0%
!! TTGTCCTCTAAAACAAGCTT+GGG + chr2.1:23456047-23456066 MS.gene63747:CDS 35.0%
!!! TGTTTTAGAGGACAAGTACA+TGG - chr2.1:23456042-23456061 None:intergenic 35.0%
CTTATGGAACCACTAGCAAA+AGG - chr2.1:23456144-23456163 None:intergenic 40.0%
GCTGCTTATGAAGAAAATGG+TGG + chr2.1:23456102-23456121 MS.gene63747:CDS 40.0%
! CAATTTGAAAGTGCAACTGG+TGG - chr2.1:23455913-23455932 None:intergenic 40.0%
!! CTTGTCCTCTAAAACAAGCT+TGG + chr2.1:23456046-23456065 MS.gene63747:CDS 40.0%
!! TGTCCTCTAAAACAAGCTTG+GGG + chr2.1:23456048-23456067 MS.gene63747:CDS 40.0%
GATTCTCAAGCTAAGGCTAG+AGG + chr2.1:23456186-23456205 MS.gene63747:CDS 45.0%
GGAAGCCTTGATGCACTTAT+TGG + chr2.1:23456069-23456088 MS.gene63747:CDS 45.0%
GGTGAGAGATTCTCAAGCTA+AGG + chr2.1:23456179-23456198 MS.gene63747:CDS 45.0%
TAGAGGACAAGTACATGGTC+CGG - chr2.1:23456037-23456056 None:intergenic 45.0%
!! TGTGACTCGTATCGACTAAG+TGG - chr2.1:23455841-23455860 None:intergenic 45.0%
!!! CTTCCCCAAGCTTGTTTTAG+AGG - chr2.1:23456054-23456073 None:intergenic 45.0%
AGAGGACAAGTACATGGTCC+GGG - chr2.1:23456036-23456055 None:intergenic 50.0%
AGTACATGGTCCGGGTGGTT+CGG - chr2.1:23456028-23456047 None:intergenic 55.0%
TTCGGACAAACCGAACCACC+CGG + chr2.1:23456015-23456034 MS.gene63747:CDS 55.0%
GGACAAGTACATGGTCCGGG+TGG - chr2.1:23456033-23456052 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 23455748 23456287 23455748 ID=MS.gene63747
chr2.1 mRNA 23455748 23456287 23455748 ID=MS.gene63747.t1;Parent=MS.gene63747
chr2.1 exon 23455748 23456287 23455748 ID=MS.gene63747.t1.exon1;Parent=MS.gene63747.t1
chr2.1 CDS 23455748 23456287 23455748 ID=cds.MS.gene63747.t1;Parent=MS.gene63747.t1
Gene Sequence

>MS.gene63747

ATGTCCAACAAAGGAAAAGACATAGTAGAAGGATCATCAAGATCTTCAATAGGTGATGGTGATCAAAATCAGCAGCATCAACAACAAATTCCACTTAGTCGATACGAGTCACAAAAGAGAAGAGATTGGAACACTTTTGGACAATACTTAAGGAATCAAAGACCACCAGTTGCACTTTCAAATTGTAGTTCAAACCATGTTCTTGAATTCCTAAGGTACTTGGATCAATTTGGAAAAACAAAAGTGCACTTACAAGGTTGTTTGTTTTTCGGACAAACCGAACCACCCGGACCATGTACTTGTCCTCTAAAACAAGCTTGGGGAAGCCTTGATGCACTTATTGGAAGATTAAGAGCTGCTTATGAAGAAAATGGTGGATTACCTGAAACTAATCCTTTTGCTAGTGGTTCCATAAGAATCTATCTTCGTGAGGTGAGAGATTCTCAAGCTAAGGCTAGAGGAATTCCTTACAAGAAGAAAAAGAAGAAGAGGGTTGCAATTAAACATAACGGGGATACCTCAAATTTACCTATGCAGTAA
Protein sequence

>MS.gene63747.t1

MSNKGKDIVEGSSRSSIGDGDQNQQHQQQIPLSRYESQKRRDWNTFGQYLRNQRPPVALSNCSSNHVLEFLRYLDQFGKTKVHLQGCLFFGQTEPPGPCTCPLKQAWGSLDALIGRLRAAYEENGGLPETNPFASGSIRIYLREVRDSQAKARGIPYKKKKKKRVAIKHNGDTSNLPMQ