AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080048464.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048464.01.T01 MTR_2g105270 99.515 206 1 0 3 208 243 448 1.27e-149 423
MsG0080048464.01.T01 MTR_2g105270 99.231 130 1 0 3 132 243 372 2.39e-86 261
MsG0080048464.01.T01 MTR_2g105270 98.261 115 2 0 3 117 243 357 5.08e-75 230
MsG0080048464.01.T01 MTR_5g045590 51.174 213 88 3 3 207 200 404 2.19e-64 204
MsG0080048464.01.T01 MTR_5g005240 42.060 233 105 7 3 206 212 443 1.79e-43 151
MsG0080048464.01.T01 MTR_1g040495 41.919 198 81 5 3 197 193 359 6.02e-38 135
MsG0080048464.01.T01 MTR_8g088670 40.291 206 98 7 3 206 238 420 1.26e-37 135
MsG0080048464.01.T01 MTR_1g093370 46.753 154 78 2 57 206 13 166 4.13e-37 127
MsG0080048464.01.T01 MTR_1g076220 51.538 130 62 1 78 206 99 228 2.45e-36 127
MsG0080048464.01.T01 MTR_7g096170 50.360 139 65 4 62 198 146 282 3.60e-36 128
MsG0080048464.01.T01 MTR_1g076210 50.370 135 62 2 75 206 256 388 4.29e-36 130
MsG0080048464.01.T01 MTR_1g093280 50.370 135 62 2 75 206 256 388 4.29e-36 130
MsG0080048464.01.T01 MTR_7g096170 50.360 139 65 4 62 198 243 379 1.89e-35 129
MsG0080048464.01.T01 MTR_1g106065 37.557 221 116 8 3 205 202 418 3.72e-35 128
MsG0080048464.01.T01 MTR_7g096170 52.033 123 56 3 62 183 243 363 7.84e-32 119
MsG0080048464.01.T01 MTR_8g094880 35.266 207 106 5 3 207 243 423 2.48e-31 118
MsG0080048464.01.T01 MTR_8g094905 35.266 207 106 5 3 207 243 423 2.48e-31 118
MsG0080048464.01.T01 MTR_8g098970 71.154 52 15 0 1 52 1 52 6.83e-19 77.4
MsG0080048464.01.T01 MTR_1g040455 45.349 86 42 2 111 193 1 84 1.42e-17 75.1
MsG0080048464.01.T01 MTR_7g096170 63.636 55 17 1 80 131 256 310 4.74e-15 72.8
MsG0080048464.01.T01 MTR_3g020210 80.556 36 7 0 25 60 51 86 2.30e-13 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048464.01.T01 AT1G16010 87.379 206 23 2 3 208 240 442 2.75e-124 358
MsG0080048464.01.T01 AT1G16010 87.379 206 23 2 3 208 240 442 2.75e-124 358
MsG0080048464.01.T01 AT1G16010 87.379 206 23 2 3 208 240 442 2.75e-124 358
MsG0080048464.01.T01 AT1G80900 82.039 206 35 1 3 208 240 443 3.25e-117 340
MsG0080048464.01.T01 AT1G80900 82.039 206 35 1 3 208 240 443 3.25e-117 340
MsG0080048464.01.T01 AT2G03620 54.762 210 89 5 3 208 214 421 6.37e-58 188
MsG0080048464.01.T01 AT2G03620 54.762 210 89 5 3 208 214 421 6.37e-58 188
MsG0080048464.01.T01 AT3G19640 41.126 231 104 6 3 206 258 483 2.01e-47 162
MsG0080048464.01.T01 AT5G09690 45.411 207 87 5 3 206 201 384 4.08e-46 157
MsG0080048464.01.T01 AT5G09690 45.411 207 87 5 3 206 212 395 5.42e-46 156
MsG0080048464.01.T01 AT5G09690 48.370 184 69 5 3 183 212 372 5.72e-42 145
MsG0080048464.01.T01 AT3G58970 37.981 208 104 6 3 206 248 434 6.94e-40 141
MsG0080048464.01.T01 AT5G64560 48.872 133 67 1 75 206 260 392 6.93e-37 132
MsG0080048464.01.T01 AT5G64560 60.215 93 37 0 75 167 260 352 4.97e-33 122
MsG0080048464.01.T01 AT5G09690 50.704 142 49 3 3 144 201 321 9.94e-31 115
MsG0080048464.01.T01 AT5G09690 51.408 142 42 4 3 141 201 318 1.80e-30 114
MsG0080048464.01.T01 AT5G09690 51.079 139 47 3 3 141 201 318 1.81e-30 114
MsG0080048464.01.T01 AT5G09690 51.079 139 47 3 3 141 212 329 1.88e-30 114
MsG0080048464.01.T01 AT5G09690 51.408 142 42 4 3 141 212 329 1.94e-30 114
MsG0080048464.01.T01 AT5G09690 51.408 142 42 4 3 141 212 329 1.94e-30 114
MsG0080048464.01.T01 AT5G09690 36.232 207 91 5 3 206 201 369 1.73e-25 102
MsG0080048464.01.T01 AT4G28580 32.057 209 104 6 3 206 232 407 4.84e-24 98.6

Find 40 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGTGGTGGCAGGAATATT+TGG 0.196891 contig326end:-30251 MsG0080048463.01.T01:CDS
ACATTTGTGGTTGCAATCTT+TGG 0.293975 contig326end:-30272 MsG0080048463.01.T01:CDS
CGCAAACTCCTGTTATTATA+AGG 0.306482 contig326end:+30177 None:intergenic
CAGTGGGTCCTTATAATAAC+AGG 0.314280 contig326end:-30185 MsG0080048463.01.T01:CDS
GAGTGGTGGCAGGAATATTT+GGG 0.321680 contig326end:-30250 MsG0080048463.01.T01:CDS
TGTTGGTGTAGCTTCTTATA+GGG 0.330077 contig326end:+30100 None:intergenic
GCAGATGGGACATCAAATAA+TGG 0.395904 contig326end:+30212 None:intergenic
ACTCACAACTGCAACATTTG+TGG 0.415751 contig326end:-30285 MsG0080048463.01.T01:CDS
TATGGATGATGATGGTGATA+TGG 0.419241 contig326end:-30987 MsG0080048463.01.T01:CDS
AGATGAAATAGAGCAGCTTA+TGG 0.421927 contig326end:-31005 MsG0080048463.01.T01:CDS
AGCCTCCGAGAGTGAGAGTC+AGG 0.448161 contig326end:+30836 None:intergenic
AGATTTCATCAACATTCAAC+TGG 0.455223 contig326end:-30556 MsG0080048463.01.T01:intron
GAGTCAGGTGGTGATGAAAC+AGG 0.460932 contig326end:+30851 None:intergenic
GCAATCTTTGGAGTGGTGGC+AGG 0.465654 contig326end:-30260 MsG0080048463.01.T01:CDS
TTGTGAGTAAAAGCTCAAAC+TGG 0.470435 contig326end:+30300 None:intergenic
GCTAATATTGTGGATGTGTC+AGG 0.487693 contig326end:-31032 None:intergenic
TATGGAGATCAGTCTATGGT+TGG 0.502971 contig326end:-30917 MsG0080048463.01.T01:CDS
GGTGATGAAACAGGAGAGAC+TGG 0.503084 contig326end:+30860 None:intergenic
GAGATGGATGCACCATCAAC+CGG 0.513341 contig326end:+30887 None:intergenic
AGAAGAGCTTGAGCATTGCT+AGG 0.517888 contig326end:-30811 MsG0080048463.01.T01:CDS
ATGTCCCATCTGCATTTCAG+TGG 0.522155 contig326end:-30202 MsG0080048463.01.T01:CDS
GTTGGATATAGACCGGTTGA+TGG 0.535505 contig326end:-30899 MsG0080048463.01.T01:CDS
GTCTATGGTTGGATATAGAC+CGG 0.535718 contig326end:-30906 MsG0080048463.01.T01:CDS
TGTGGTTCTTCAAGTACAGA+AGG 0.542985 contig326end:-30130 MsG0080048463.01.T01:CDS
TGTCCCATCTGCATTTCAGT+GGG 0.554672 contig326end:-30201 MsG0080048463.01.T01:CDS
CTTATAATAACAGGAGTTTG+CGG 0.555411 contig326end:-30176 MsG0080048463.01.T01:CDS
CACCACCTGACTCTCACTCT+CGG 0.557224 contig326end:-30841 MsG0080048463.01.T01:CDS
AGGAGAGACTGGAAGAGAGA+TGG 0.565175 contig326end:+30871 None:intergenic
GGAGTCGACACGAGAGCATG+AGG 0.579329 contig326end:-30790 MsG0080048463.01.T01:CDS
GGTTGCAATCTTTGGAGTGG+TGG 0.579624 contig326end:-30264 MsG0080048463.01.T01:CDS
GTTGGTGTAGCTTCTTATAG+GGG 0.584463 contig326end:+30101 None:intergenic
AGGACCCACTGAAATGCAGA+TGG 0.588506 contig326end:+30197 None:intergenic
TACCGAGAAGAAAAGACGAA+TGG 0.590299 contig326end:-30951 MsG0080048463.01.T01:CDS
TGTGGTTGCAATCTTTGGAG+TGG 0.599940 contig326end:-30267 MsG0080048463.01.T01:CDS
GAGCAGCTTATGGATGATGA+TGG 0.627314 contig326end:-30995 MsG0080048463.01.T01:CDS
CACTCTAAACAAGTTGACAT+CGG 0.643907 contig326end:-30693 MsG0080048463.01.T01:intron
CTCCGAGAGTGAGAGTCAGG+TGG 0.667939 contig326end:+30839 None:intergenic
TATTATTACAGGATAATGTG+CGG 0.676578 contig326end:-30334 MsG0080048463.01.T01:intron
GGACCCACTGAAATGCAGAT+GGG 0.678111 contig326end:+30198 None:intergenic
CACCTGACTCTCACTCTCGG+AGG 0.701741 contig326end:-30838 MsG0080048463.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACTAATAACCAAAATACAAT+AGG + contig326end:30651-30670 None:intergenic 20.0%
!! TACAATGTATGTATTATTAC+AGG - contig326end:30789-30808 MsG0080048463.01.T01:CDS 20.0%
!!! TTTTAACTGAAACAAGAAAA+TGG + contig326end:30538-30557 None:intergenic 20.0%
! AAAATACAATAGGATAACCT+TGG + contig326end:30641-30660 None:intergenic 25.0%
! AGTTAATATAGATAACAGTG+TGG + contig326end:30474-30493 None:intergenic 25.0%
! GTTAATATAGATAACAGTGT+GGG + contig326end:30473-30492 None:intergenic 25.0%
! TATTATTACAGGATAATGTG+CGG - contig326end:30800-30819 MsG0080048463.01.T01:CDS 25.0%
!! AAGGTTATCCTATTGTATTT+TGG - contig326end:30640-30659 MsG0080048463.01.T01:intron 25.0%
AAACGGTGATAGATAAATTG+CGG + contig326end:30515-30534 None:intergenic 30.0%
AGATTTCATCAACATTCAAC+TGG - contig326end:30578-30597 MsG0080048463.01.T01:CDS 30.0%
CTGAAACAAGAAAATGGAAA+CGG + contig326end:30532-30551 None:intergenic 30.0%
CTTATAATAACAGGAGTTTG+CGG - contig326end:30958-30977 MsG0080048463.01.T01:CDS 30.0%
! ATTTTATGGAGATCAGTCTA+TGG - contig326end:30213-30232 MsG0080048463.01.T01:CDS 30.0%
! GTATATTTTCTGCATTTGTG+TGG - contig326end:30986-31005 MsG0080048463.01.T01:CDS 30.0%
!!! CGAATGGAATTGTCATTTTA+TGG - contig326end:30199-30218 MsG0080048463.01.T01:CDS 30.0%
ACATTTGTGGTTGCAATCTT+TGG - contig326end:30862-30881 MsG0080048463.01.T01:CDS 35.0%
AGATGAAATAGAGCAGCTTA+TGG - contig326end:30129-30148 MsG0080048463.01.T01:CDS 35.0%
CATACAGACAACGCATAATT+GGG - contig326end:30713-30732 MsG0080048463.01.T01:CDS 35.0%
CGCAAACTCCTGTTATTATA+AGG + contig326end:30960-30979 None:intergenic 35.0%
CTTTCTCATATTAGTCACCA+AGG - contig326end:30621-30640 MsG0080048463.01.T01:intron 35.0%
GGTGACTAATATGAGAAAGA+AGG + contig326end:30620-30639 None:intergenic 35.0%
TAGATAAATTGCGGTGAAGT+TGG + contig326end:30506-30525 None:intergenic 35.0%
TCATACAGACAACGCATAAT+TGG - contig326end:30712-30731 MsG0080048463.01.T01:CDS 35.0%
TTGTGAGTAAAAGCTCAAAC+TGG + contig326end:30837-30856 None:intergenic 35.0%
! CACTCTAAACAAGTTGACAT+CGG - contig326end:30441-30460 MsG0080048463.01.T01:intron 35.0%
! TTCCATTCGTCTTTTCTTCT+CGG + contig326end:30188-30207 None:intergenic 35.0%
!! TATGGATGATGATGGTGATA+TGG - contig326end:30147-30166 MsG0080048463.01.T01:CDS 35.0%
ACTCACAACTGCAACATTTG+TGG - contig326end:30849-30868 MsG0080048463.01.T01:CDS 40.0%
CAGTGGGTCCTTATAATAAC+AGG - contig326end:30949-30968 MsG0080048463.01.T01:CDS 40.0%
GCAGATGGGACATCAAATAA+TGG + contig326end:30925-30944 None:intergenic 40.0%
GTCTATGGTTGGATATAGAC+CGG - contig326end:30228-30247 MsG0080048463.01.T01:CDS 40.0%
GTTGTCTGTATGAGTATGTG+TGG + contig326end:30705-30724 None:intergenic 40.0%
TACCGAGAAGAAAAGACGAA+TGG - contig326end:30183-30202 MsG0080048463.01.T01:CDS 40.0%
TATGGAGATCAGTCTATGGT+TGG - contig326end:30217-30236 MsG0080048463.01.T01:CDS 40.0%
TGTGGTTCTTCAAGTACAGA+AGG - contig326end:31004-31023 MsG0080048463.01.T01:CDS 40.0%
! TTCGTCTTTTCTTCTCGGTA+AGG + contig326end:30183-30202 None:intergenic 40.0%
ACAGACAACGCATAATTGGG+AGG - contig326end:30716-30735 MsG0080048463.01.T01:CDS 45.0%
AGACAACGCATAATTGGGAG+GGG - contig326end:30718-30737 MsG0080048463.01.T01:CDS 45.0%
ATGTCCCATCTGCATTTCAG+TGG - contig326end:30932-30951 MsG0080048463.01.T01:CDS 45.0%
CAGACAACGCATAATTGGGA+GGG - contig326end:30717-30736 MsG0080048463.01.T01:CDS 45.0%
GAGCAGCTTATGGATGATGA+TGG - contig326end:30139-30158 MsG0080048463.01.T01:CDS 45.0%
GAGTGGTGGCAGGAATATTT+GGG - contig326end:30884-30903 MsG0080048463.01.T01:CDS 45.0%
GTTGGATATAGACCGGTTGA+TGG - contig326end:30235-30254 MsG0080048463.01.T01:CDS 45.0%
TGTCCCATCTGCATTTCAGT+GGG - contig326end:30933-30952 MsG0080048463.01.T01:CDS 45.0%
! AGAAGAGCTTGAGCATTGCT+AGG - contig326end:30323-30342 MsG0080048463.01.T01:CDS 45.0%
! TGTGGTTGCAATCTTTGGAG+TGG - contig326end:30867-30886 MsG0080048463.01.T01:CDS 45.0%
AACGCATAATTGGGAGGGGA+GGG - contig326end:30722-30741 MsG0080048463.01.T01:CDS 50.0%
AGGACCCACTGAAATGCAGA+TGG + contig326end:30940-30959 None:intergenic 50.0%
AGGAGAGACTGGAAGAGAGA+TGG + contig326end:30266-30285 None:intergenic 50.0%
GAGATGGATGCACCATCAAC+CGG + contig326end:30250-30269 None:intergenic 50.0%
GGACCCACTGAAATGCAGAT+GGG + contig326end:30939-30958 None:intergenic 50.0%
GGAGTGGTGGCAGGAATATT+TGG - contig326end:30883-30902 MsG0080048463.01.T01:CDS 50.0%
GGTGATGAAACAGGAGAGAC+TGG + contig326end:30277-30296 None:intergenic 50.0%
! GAGTCAGGTGGTGATGAAAC+AGG + contig326end:30286-30305 None:intergenic 50.0%
!! GGTTGCAATCTTTGGAGTGG+TGG - contig326end:30870-30889 MsG0080048463.01.T01:CDS 50.0%
CAACGCATAATTGGGAGGGG+AGG - contig326end:30721-30740 MsG0080048463.01.T01:CDS 55.0%
CACCACCTGACTCTCACTCT+CGG - contig326end:30293-30312 MsG0080048463.01.T01:CDS 55.0%
!! GCAATCTTTGGAGTGGTGGC+AGG - contig326end:30874-30893 MsG0080048463.01.T01:CDS 55.0%
AGCCTCCGAGAGTGAGAGTC+AGG + contig326end:30301-30320 None:intergenic 60.0%
CACCTGACTCTCACTCTCGG+AGG - contig326end:30296-30315 MsG0080048463.01.T01:CDS 60.0%
CTCCGAGAGTGAGAGTCAGG+TGG + contig326end:30298-30317 None:intergenic 60.0%
! GGAGTCGACACGAGAGCATG+AGG - contig326end:30344-30363 MsG0080048463.01.T01:intron 60.0%
Chromosome Type Strat End Strand Name
contig326end gene 30115 31041 30115 ID=MsG0080048464.01;Name=MsG0080048464.01
contig326end mRNA 30115 31041 30115 ID=MsG0080048464.01.T01;Parent=MsG0080048464.01;Name=MsG0080048464.01.T01;_AED=0.32;_eAED=0.33;_QI=0|0|0|1|1|1|3|0|208
contig326end exon 30694 31041 30694 ID=MsG0080048464.01.T01:exon:22869;Parent=MsG0080048464.01.T01
contig326end exon 30557 30604 30557 ID=MsG0080048464.01.T01:exon:22868;Parent=MsG0080048464.01.T01
contig326end exon 30115 30345 30115 ID=MsG0080048464.01.T01:exon:22867;Parent=MsG0080048464.01.T01
contig326end CDS 30694 31041 30694 ID=MsG0080048464.01.T01:cds;Parent=MsG0080048464.01.T01
contig326end CDS 30557 30604 30557 ID=MsG0080048464.01.T01:cds;Parent=MsG0080048464.01.T01
contig326end CDS 30115 30345 30115 ID=MsG0080048464.01.T01:cds;Parent=MsG0080048464.01.T01
Gene Sequence

>MsG0080048464.01.T01

ATGTGTCAGGTTAGAGATGAAATAGAGCAGCTTATGGATGATGATGGTGATATGGCTGAAATGTACCTTACCGAGAAGAAAAGACGAATGGAATTGTCATTTTATGGAGATCAGTCTATGGTTGGATATAGACCGGTTGATGGTGCATCCATCTCTCTTCCAGTCTCTCCTGTTTCATCACCACCTGACTCTCACTCTCGGAGGCTTGAGAAGAGCTTGAGCATTGCTAGGAGTCGACACGAGAGCATGAGGAGTTCTGAAAGTAATAATGAAAATATAGAAGAACTTGAGATGTTGTTAGAAGCATACTTTGTTGTCATTGATAGCACTCTAAACAAGTTGACATCGTTAAAAGAATACATCGATGACACTGAAGATTTCATCAACATTCAACTGGATAATGTGCGGAATCAGCTTATCCAGTTTGAGCTTTTACTCACAACTGCAACATTTGTGGTTGCAATCTTTGGAGTGGTGGCAGGAATATTTGGGATGAACTTTGAAATTCCATTATTTGATGTCCCATCTGCATTTCAGTGGGTCCTTATAATAACAGGAGTTTGCGGAGTGTGTATATTTTCTGCATTTGTGTGGTTCTTCAAGTACAGAAGGCTCATGCCCCTATAA

Protein sequence

>MsG0080048464.01.T01

MCQVRDEIEQLMDDDGDMAEMYLTEKKRRMELSFYGDQSMVGYRPVDGASISLPVSPVSSPPDSHSRRLEKSLSIARSRHESMRSSESNNENIEELEMLLEAYFVVIDSTLNKLTSLKEYIDDTEDFINIQLDNVRNQLIQFELLLTTATFVVAIFGVVAGIFGMNFEIPLFDVPSAFQWVLIITGVCGVCIFSAFVWFFKYRRLMPL*