AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1438150

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1438150 MtrunA17_Chr1g0188441 94.241 191 7 1 8 194 1 191 3.55e-132 368
Msa1438150 MtrunA17_Chr4g0076821 41.772 237 78 5 15 191 112 348 2.75e-56 181
Msa1438150 MtrunA17_Chr5g0412501 45.685 197 85 4 14 189 76 271 1.87e-52 169
Msa1438150 MtrunA17_Chr3g0133181 44.000 200 90 3 13 191 77 275 4.49e-51 166
Msa1438150 MtrunA17_Chr5g0427051 39.906 213 90 4 14 189 56 267 3.54e-47 155
Msa1438150 MtrunA17_Chr5g0404271 40.887 203 89 5 16 191 99 297 5.84e-46 153
Msa1438150 MtrunA17_Chr7g0217231 40.686 204 88 6 13 189 85 282 2.47e-44 150
Msa1438150 MtrunA17_Chr8g0367691 37.681 207 92 5 15 190 68 268 2.42e-40 137
Msa1438150 MtrunA17_Chr2g0315941 37.864 206 90 5 16 189 68 267 6.10e-40 137
Msa1438150 MtrunA17_Chr6g0453231 37.838 222 62 6 16 189 91 284 7.02e-40 138
Msa1438150 MtrunA17_Chr6g0479901 37.572 173 74 6 16 185 19 160 3.20e-33 117
Msa1438150 MtrunA17_Chr8g0361671 61.905 63 24 0 127 189 271 333 3.82e-21 89.4
Msa1438150 MtrunA17_Chr8g0361671 64.407 59 17 2 12 67 60 117 1.66e-19 85.1
Msa1438150 MtrunA17_Chr3g0092371 58.929 56 23 0 14 69 18 73 1.56e-19 79.0
Msa1438150 MtrunA17_Chr6g0453221 60.000 55 18 1 10 64 15 65 4.58e-17 72.4
Msa1438150 MtrunA17_Chr4g0060731 56.897 58 20 2 10 66 19 72 2.99e-15 67.8
Msa1438150 MtrunA17_Chr8g0357741 37.624 101 43 2 89 189 16 96 6.68e-15 67.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1438150 AT1G14440.1 50.505 198 81 4 10 190 84 281 1.25e-61 194
Msa1438150 AT1G14440.2 50.505 198 81 4 10 190 84 281 1.25e-61 194
Msa1438150 AT2G02540.2 48.571 210 84 5 9 194 80 289 6.52e-61 192
Msa1438150 AT2G02540.1 48.571 210 84 5 9 194 80 289 6.52e-61 192
Msa1438150 AT4G24660.1 48.876 178 84 4 14 189 47 219 7.22e-54 171
Msa1438150 AT4G24660.2 49.143 175 82 4 14 186 47 216 5.57e-53 169
Msa1438150 AT5G65410.1 42.935 184 90 2 15 188 74 252 7.73e-48 157
Msa1438150 AT2G18350.1 45.161 186 91 3 14 191 80 262 9.06e-48 157
Msa1438150 AT1G69600.1 41.414 198 92 5 8 186 23 215 2.05e-45 150
Msa1438150 AT5G60480.1 45.198 177 90 5 10 183 31 203 1.95e-44 147
Msa1438150 AT5G15210.1 43.523 193 85 7 9 183 49 235 3.08e-41 140
Msa1438150 AT3G50890.1 42.408 191 100 3 14 194 58 248 1.23e-40 138
Msa1438150 AT3G28920.1 40.476 210 80 5 14 186 50 251 2.96e-39 136
Msa1438150 AT5G42780.1 38.624 189 104 6 3 184 53 236 4.25e-27 103
Msa1438150 AT1G75240.1 68.966 58 18 0 11 68 71 128 2.52e-25 100
Msa1438150 AT1G75240.1 52.778 72 34 0 123 194 236 307 4.05e-19 83.6
Msa1438150 AT1G74660.2 61.404 57 22 0 14 70 37 93 1.48e-21 85.1
Msa1438150 AT1G74660.1 61.404 57 22 0 14 70 37 93 2.05e-21 84.7
Msa1438150 AT3G28917.1 62.069 58 21 1 14 70 31 88 3.03e-20 81.6
Msa1438150 AT5G39760.1 56.061 66 29 0 127 192 200 265 4.79e-20 86.3
Msa1438150 AT5G39760.1 56.667 60 24 1 12 69 52 111 7.02e-16 74.7
Msa1438150 AT1G18835.1 61.404 57 19 1 14 70 24 77 4.74e-19 78.2
Msa1438150 AT1G14687.1 30.726 179 98 7 16 186 7 167 1.31e-18 79.3

Find 23 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAACATTAATGCACCTTTCT+TGG 0.224192 tig0028517:-8216 Msa1438150:CDS
CTTCTTAACTATCATCATTT+CGG 0.322468 tig0028517:+8100 None:intergenic
TTATGAGAAAGATTGTATTA+AGG 0.325403 tig0028517:-8138 Msa1438150:CDS
GATGTTGTGCTTTGCAGAAA+AGG 0.377384 tig0028517:-8039 Msa1438150:CDS
GCTTGTAGAAAGATTTCTCT+TGG 0.457726 tig0028517:+7902 None:intergenic
AAGAACCATGCAGCTACAAT+TGG 0.462343 tig0028517:-8401 Msa1438150:CDS
TATTATGCATCCACACTTTG+AGG 0.473414 tig0028517:+7940 None:intergenic
ATTGGTGGCAATGCTATTGA+TGG 0.477828 tig0028517:-8383 Msa1438150:CDS
TTATCTCCTATCAACAAAAG+TGG 0.483500 tig0028517:-8188 Msa1438150:CDS
GGTGCATTAATGTTATGATC+AGG 0.492826 tig0028517:+8224 None:intergenic
TAAGTTCAGTAAAGAACAGA+AGG 0.524622 tig0028517:-8066 Msa1438150:CDS
AACCATGCAGCTACAATTGG+TGG 0.533193 tig0028517:-8398 Msa1438150:CDS
GGAGATAAATGAGCCAAGAA+AGG 0.551764 tig0028517:+8203 None:intergenic
TGCCACCAATTGTAGCTGCA+TGG 0.577086 tig0028517:+8396 None:intergenic
GGCAATGCTATTGATGGATG+TGG 0.581028 tig0028517:-8377 Msa1438150:CDS
TCATAATAAGACTGATCAGA+AGG 0.587605 tig0028517:+8155 None:intergenic
AAATGATGATAGTTAAGAAG+AGG 0.597202 tig0028517:-8097 Msa1438150:CDS
AGAGAAGAATCCTCAAAGTG+TGG 0.619701 tig0028517:-7950 Msa1438150:CDS
TTGCAGAAAAGGCAGAGTGG+AGG 0.636718 tig0028517:-8028 Msa1438150:CDS
GTGGAGGATTCAGAAGCTAG+AGG 0.637697 tig0028517:-8012 Msa1438150:CDS
TCAGAAGCTAGAGGAATCTG+TGG 0.646518 tig0028517:-8003 Msa1438150:CDS
TGTGGTGAGTTCATGCCAAG+TGG 0.691258 tig0028517:-8359 Msa1438150:CDS
GCTTTGCAGAAAAGGCAGAG+TGG 0.697318 tig0028517:-8031 Msa1438150:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATGAGAAAGATTGTATTA+AGG - tig0028517:8222-8241 Msa1438150:CDS 20.0%
! CTTCTTAACTATCATCATTT+CGG + tig0028517:8263-8282 None:intergenic 25.0%
! AAATGATGATAGTTAAGAAG+AGG - tig0028517:8263-8282 Msa1438150:CDS 25.0%
TAACATTAATGCACCTTTCT+TGG - tig0028517:8144-8163 Msa1438150:CDS 30.0%
TTATCTCCTATCAACAAAAG+TGG - tig0028517:8172-8191 Msa1438150:CDS 30.0%
TCATAATAAGACTGATCAGA+AGG + tig0028517:8208-8227 None:intergenic 30.0%
TAAGTTCAGTAAAGAACAGA+AGG - tig0028517:8294-8313 Msa1438150:CDS 30.0%
! CTTTTCTGTGGAAGTTTCTA+TGG + tig0028517:8072-8091 None:intergenic 35.0%
!! CAGACTCTATTTCTTTTCTG+TGG + tig0028517:8084-8103 None:intergenic 35.0%
GGTGCATTAATGTTATGATC+AGG + tig0028517:8139-8158 None:intergenic 35.0%
!! GTTGATCCACTTTTGTTGAT+AGG + tig0028517:8181-8200 None:intergenic 35.0%
!! CAGAAGTTTTGTCAAGAGAT+TGG - tig0028517:8382-8401 Msa1438150:CDS 35.0%
TATTATGCATCCACACTTTG+AGG + tig0028517:8423-8442 None:intergenic 35.0%
GCTTGTAGAAAGATTTCTCT+TGG + tig0028517:8461-8480 None:intergenic 35.0%
AAGAACCATGCAGCTACAAT+TGG - tig0028517:7959-7978 Msa1438150:CDS 40.0%
! ATTGGTGGCAATGCTATTGA+TGG - tig0028517:7977-7996 Msa1438150:CDS 40.0%
!!! AGTGTGTCATTTTCTCCACT+TGG + tig0028517:8019-8038 None:intergenic 40.0%
GGAGATAAATGAGCCAAGAA+AGG + tig0028517:8160-8179 None:intergenic 40.0%
GATGTTGTGCTTTGCAGAAA+AGG - tig0028517:8321-8340 Msa1438150:CDS 40.0%
AGAGAAGAATCCTCAAAGTG+TGG - tig0028517:8410-8429 Msa1438150:CDS 40.0%
AACCATGCAGCTACAATTGG+TGG - tig0028517:7962-7981 Msa1438150:CDS 45.0%
! GGCAATGCTATTGATGGATG+TGG - tig0028517:7983-8002 Msa1438150:CDS 45.0%
TCAGAAGCTAGAGGAATCTG+TGG - tig0028517:8357-8376 Msa1438150:CDS 45.0%
TGCCACCAATTGTAGCTGCA+TGG + tig0028517:7967-7986 None:intergenic 50.0%
TGTGGTGAGTTCATGCCAAG+TGG - tig0028517:8001-8020 Msa1438150:CDS 50.0%
GCTTTGCAGAAAAGGCAGAG+TGG - tig0028517:8329-8348 Msa1438150:CDS 50.0%
TTGCAGAAAAGGCAGAGTGG+AGG - tig0028517:8332-8351 Msa1438150:CDS 50.0%
GTGGAGGATTCAGAAGCTAG+AGG - tig0028517:8348-8367 Msa1438150:CDS 50.0%
Chromosome Type Strat End Strand Name
tig0028517 gene 7899 8483 7899 ID=Msa1438150;Name=Msa1438150
tig0028517 mRNA 7899 8483 7899 ID=Msa1438150-mRNA-1;Parent=Msa1438150;Name=Msa1438150-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0|-1|0|1|-1|1|1|0|194
tig0028517 exon 7899 8483 7899 ID=Msa1438150-mRNA-1:exon:11115;Parent=Msa1438150-mRNA-1
tig0028517 CDS 7899 8483 7899 ID=Msa1438150-mRNA-1:cds;Parent=Msa1438150-mRNA-1
Gene Sequence

>Msa1438150

ATGGAGTCTAGCATTTTTCATGTTGAGAAAAAGATAGTAGTAAAATATAAAGAGTGTCTCAAGAACCATGCAGCTACAATTGGTGGCAATGCTATTGATGGATGTGGTGAGTTCATGCCAAGTGGAGAAAATGACACACTTGAAGCTCTCAAGTGTTGTGCTTGCAATTGCCATAGAAACTTCCACAGAAAAGAAATAGAGTCTGATTTTCAACATTATGCTAATCTTTCACTGATTCCTGATCATAACATTAATGCACCTTTCTTGGCTCATTTATCTCCTATCAACAAAAGTGGATCAACTAGTCCTTCTGATCAGTCTTATTATGAGAAAGATTGTATTAAGGATGTCGAAAATCGAACCGAAATGATGATAGTTAAGAAGAGGTCTAGAACTAAGTTCAGTAAAGAACAGAAGGAGAAGATGTTGTGCTTTGCAGAAAAGGCAGAGTGGAGGATTCAGAAGCTAGAGGAATCTGTGGTGCAGAAGTTTTGTCAAGAGATTGGAATCAAGAGAAGAATCCTCAAAGTGTGGATGCATAATAACAAGAACACTTTTGCCAAGAGAAATCTTTCTACAAGCTAG
Protein sequence

>Msa1438150

MESSIFHVEKKIVVKYKECLKNHAATIGGNAIDGCGEFMPSGENDTLEALKCCACNCHRNFHRKEIESDFQHYANLSLIPDHNINAPFLAHLSPINKSGSTSPSDQSYYEKDCIKDVENRTEMMIVKKRSRTKFSKEQKEKMLCFAEKAEWRIQKLEESVVQKFCQEIGIKRRILKVWMHNNKNTFAKRNLSTS*