AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003028

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003028 MtrunA17_Chr1g0181771 96.875 288 9 0 1 288 11 298 0.0 579
MsaG003028 MtrunA17_Chr8g0348391 51.711 263 111 4 25 272 52 313 2.28e-84 256
MsaG003028 MtrunA17_Chr6g0469431 64.865 148 43 4 7 149 18 161 2.67e-56 181
MsaG003028 MtrunA17_Chr6g0481061 56.250 112 38 2 18 118 38 149 1.95e-26 107
MsaG003028 MtrunA17_Chr3g0109791 57.143 98 34 1 26 115 46 143 3.71e-26 105
MsaG003028 MtrunA17_Chr5g0433851 55.856 111 36 3 18 120 24 129 4.60e-25 103
MsaG003028 MtrunA17_Chr7g0276421 57.143 70 30 0 18 87 7 76 6.11e-23 98.6
MsaG003028 MtrunA17_Chr6g0469441 68.519 54 17 0 202 255 24 77 1.22e-21 87.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003028 AT3G09600.1 67.050 261 79 3 11 265 17 276 3.60e-126 362
MsaG003028 AT3G09600.7 67.050 261 79 3 11 265 17 276 3.60e-126 362
MsaG003028 AT3G09600.2 66.171 269 78 4 11 273 17 278 2.29e-123 354
MsaG003028 AT3G09600.6 66.171 269 78 4 11 273 17 278 2.29e-123 354
MsaG003028 AT3G09600.4 68.526 251 72 3 11 255 17 266 2.56e-123 353
MsaG003028 AT5G02840.3 64.706 255 77 4 20 263 31 283 1.80e-112 326
MsaG003028 AT5G02840.1 62.452 261 85 4 20 269 31 289 2.32e-110 321
MsaG003028 AT5G02840.2 62.452 261 85 4 20 269 31 289 2.32e-110 321
MsaG003028 AT3G09600.3 65.899 217 67 3 55 265 5 220 1.42e-100 295
MsaG003028 AT3G09600.8 65.899 217 67 3 55 265 5 220 1.42e-100 295
MsaG003028 AT3G09600.5 64.889 225 66 4 55 273 5 222 8.94e-98 287
MsaG003028 AT3G09600.9 64.889 225 66 4 55 273 5 222 8.94e-98 287
MsaG003028 AT5G02840.4 63.913 230 70 4 20 238 31 258 1.55e-97 288
MsaG003028 AT5G02840.5 63.478 230 71 4 20 238 31 258 4.15e-97 287
MsaG003028 AT5G52660.1 53.571 280 120 4 10 281 45 322 1.11e-88 268
MsaG003028 AT5G52660.2 51.957 281 124 4 10 281 45 323 1.20e-87 265
MsaG003028 AT1G01520.1 55.000 260 93 6 16 265 40 285 5.34e-85 256
MsaG003028 AT4G01280.2 51.636 275 110 6 7 264 29 297 1.91e-83 253
MsaG003028 AT1G01520.3 56.000 250 86 6 16 255 40 275 1.45e-82 250
MsaG003028 AT4G01280.1 51.460 274 111 7 7 264 29 296 2.38e-82 250
MsaG003028 AT1G01520.2 54.506 233 82 6 16 238 40 258 8.02e-72 222
MsaG003028 AT1G01520.4 54.506 233 82 6 16 238 40 258 8.02e-72 222
MsaG003028 AT5G17300.1 55.000 100 37 1 19 110 37 136 1.70e-27 110
MsaG003028 AT5G37260.1 56.701 97 38 1 18 110 17 113 1.89e-26 105
MsaG003028 AT1G01520.5 71.429 63 18 0 203 265 139 201 2.96e-26 102
MsaG003028 AT1G18330.1 55.319 94 34 2 26 111 39 132 2.09e-24 101
MsaG003028 AT1G01060.8 51.250 80 39 0 16 95 3 82 2.29e-24 103
MsaG003028 AT1G01060.2 51.250 80 39 0 16 95 3 82 2.29e-24 103
MsaG003028 AT1G01060.3 51.250 80 39 0 16 95 3 82 2.29e-24 103
MsaG003028 AT1G01060.1 51.250 80 39 0 16 95 3 82 2.29e-24 103
MsaG003028 AT1G01060.7 51.250 80 39 0 16 95 3 82 2.29e-24 103
MsaG003028 AT1G01060.4 51.250 80 39 0 16 95 3 82 2.31e-24 103
MsaG003028 AT3G10113.1 55.319 94 34 2 26 111 54 147 3.57e-24 100
MsaG003028 AT1G18330.2 55.319 94 34 2 26 111 65 158 3.96e-24 100
MsaG003028 AT2G46830.1 59.722 72 29 0 16 87 3 74 2.53e-23 100

Find 61 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTACAATGGGATCAAAATT+AGG 0.151868 1:-50772024 None:intergenic
CTACCAGCATCCATTGCTTT+TGG 0.209435 1:+50767923 MsaT003028.1:CDS
CCGGACTTTGCTGAAGTTTA+CGG 0.260906 1:+50768673 MsaT003028.1:CDS
TGAGTTAGAATTAGAGTTCA+TGG 0.279860 1:-50766763 None:intergenic
CTCACAGTTTCAAAGTTTAT+AGG 0.310240 1:-50768760 None:intergenic
TGGCTCTAAAACAGTTATTC+AGG 0.322186 1:+50767055 MsaT003028.1:CDS
CTTGACTTGGTAATTGTGTA+AGG 0.342024 1:-50766852 None:intergenic
TCACAGTTTCAAAGTTTATA+GGG 0.345459 1:-50768759 None:intergenic
ACGATATTTAACAGGTTTGC+CGG 0.354143 1:+50768654 MsaT003028.1:intron
TTACAATGGGATCAAAATTA+GGG 0.364435 1:-50772023 None:intergenic
CTAGTTGTTGTAGTTGTTGT+TGG 0.376561 1:-50766795 None:intergenic
TATTCAGATTTGATAGAGAT+TGG 0.391995 1:+50767012 MsaT003028.1:intron
TTCTTAAAGGTTCAAAAGAA+TGG 0.393543 1:+50767225 MsaT003028.1:CDS
TGCACATGGCCGTTTGTATC+CGG 0.400201 1:-50768718 None:intergenic
TGACATACCCTGCAGGTAGA+AGG 0.407875 1:-50767961 None:intergenic
GGATGAATAGCTTTGCGCTT+AGG 0.413895 1:-50767276 None:intergenic
ACTAGTGGTGGAGATGCTTC+TGG 0.418390 1:+50766813 MsaT003028.1:CDS
GCTGAAGTTTACGGTTTCAT+TGG 0.426347 1:+50768682 MsaT003028.1:CDS
GATGAACTCAACAATCTTCA+AGG 0.432102 1:+50768022 MsaT003028.1:CDS
TTAGCTGACATTGGATCAAA+GGG 0.440291 1:+50768181 MsaT003028.1:intron
TGTGCAGAAGCTGAAGGAAA+TGG 0.443024 1:+50768735 MsaT003028.1:CDS
TGTGTTGGTATTTGAGAAGT+AGG 0.447932 1:-50768253 None:intergenic
ACACAAAATCCCGTGATTCA+TGG 0.453178 1:+50768280 MsaT003028.1:CDS
TTTACTGATTTAGCTGACAT+TGG 0.472761 1:+50768172 MsaT003028.1:intron
TTTCCTTCAGCTTCTGCACA+TGG 0.485443 1:-50768732 None:intergenic
AACAATCTTCAAGGAAATGA+AGG 0.487995 1:+50768031 MsaT003028.1:CDS
TTGCGCTTAGGACGAGGAGG+AGG 0.489119 1:-50767264 None:intergenic
ATCAGCAACAGCGGTCTTAG+TGG 0.492479 1:+50768205 MsaT003028.1:CDS
GAACTCTAATTCTAACTCAA+TGG 0.493422 1:+50766767 MsaT003028.1:CDS
GCAAATACCCTTCTACCTGC+AGG 0.497509 1:+50767953 MsaT003028.1:CDS
GAGCCAAAAGCAATGGATGC+TGG 0.501558 1:-50767926 None:intergenic
CATGCTGATGAATACTTGTC+AGG 0.511561 1:+50768000 MsaT003028.1:CDS
GTGTTGGTATTTGAGAAGTA+GGG 0.528190 1:-50768252 None:intergenic
TTTAGCTGACATTGGATCAA+AGG 0.530841 1:+50768180 MsaT003028.1:intron
CCGTAAACTTCAGCAAAGTC+CGG 0.533484 1:-50768673 None:intergenic
AGACCAGCTTTCTCTTGACT+TGG 0.533707 1:-50766865 None:intergenic
AAAGCAATGGATGCTGGTAG+TGG 0.539195 1:-50767920 None:intergenic
TGGAGATGCTTCTGGTAAGA+AGG 0.544373 1:+50766821 MsaT003028.1:CDS
TACCTGCAGGGTATGTCACG+TGG 0.562293 1:+50767966 MsaT003028.1:CDS
ATAGCTTTGCGCTTAGGACG+AGG 0.563263 1:-50767270 None:intergenic
GACATACCCTGCAGGTAGAA+GGG 0.588018 1:-50767960 None:intergenic
TTACCAAGTCAAGAGAAAGC+TGG 0.591540 1:+50766862 MsaT003028.1:CDS
TGCCGAAGAGCCAAAAGCAA+TGG 0.592704 1:-50767933 None:intergenic
ACAACTACAACAACTAGTGG+TGG 0.601385 1:+50766801 MsaT003028.1:CDS
CAAATACCCTTCTACCTGCA+GGG 0.604923 1:+50767954 MsaT003028.1:CDS
CGGCCATGTGCAGAAGCTGA+AGG 0.613903 1:+50768729 MsaT003028.1:CDS
AAATTGCTAGTGGTCAGTAG+TGG 0.620002 1:-50773977 None:intergenic
TGCGCTTAGGACGAGGAGGA+GGG 0.622142 1:-50767263 None:intergenic
ACCTGCAGGGTATGTCACGT+GGG 0.625418 1:+50767967 MsaT003028.1:CDS
CAGACGATTACCATGAATCA+CGG 0.628602 1:-50768290 None:intergenic
AGACGATTACCATGAATCAC+GGG 0.628967 1:-50768289 None:intergenic
TCCCACGTGACATACCCTGC+AGG 0.633438 1:-50767968 None:intergenic
CTGACAAGTATTCATCAGCA+TGG 0.637093 1:-50767999 None:intergenic
ACAACAACTACAACAACTAG+TGG 0.647197 1:+50766798 MsaT003028.1:CDS
GGCTAGACAAGTTGACAGTG+AGG 0.653452 1:-50772002 None:intergenic
ACTTCTCAAATACCAACACA+AGG 0.657953 1:+50768256 MsaT003028.1:CDS
TCAAAGGGGATCAGCAACAG+CGG 0.674075 1:+50768196 MsaT003028.1:CDS
GTGTTGAAGATACTAATACA+AGG 0.674684 1:+50768227 MsaT003028.1:CDS
GCTTTGCGCTTAGGACGAGG+AGG 0.703477 1:-50767267 None:intergenic
CTTCTCAAATACCAACACAA+GGG 0.709558 1:+50768257 MsaT003028.1:CDS
TAGCTGACATTGGATCAAAG+GGG 0.749798 1:+50768182 MsaT003028.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 50766765 50773993 50766765 ID=MsaG003028
Chr1 mRNA 50766765 50773993 50766765 ID=MsaT003028.1;Parent=MsaG003028
Chr1 exon 50766765 50766925 50766765 ID=MsaT003028.1.exon1;Parent=MsaT003028.1
Chr1 CDS 50766765 50766925 50766765 ID=cds.MsaT003028.1;Parent=MsaT003028.1
Chr1 exon 50767019 50767076 50767019 ID=MsaT003028.1.exon2;Parent=MsaT003028.1
Chr1 CDS 50767019 50767076 50767019 ID=cds.MsaT003028.1;Parent=MsaT003028.1
Chr1 exon 50767201 50767324 50767201 ID=MsaT003028.1.exon3;Parent=MsaT003028.1
Chr1 CDS 50767201 50767324 50767201 ID=cds.MsaT003028.1;Parent=MsaT003028.1
Chr1 exon 50767912 50768052 50767912 ID=MsaT003028.1.exon4;Parent=MsaT003028.1
Chr1 CDS 50767912 50768052 50767912 ID=cds.MsaT003028.1;Parent=MsaT003028.1
Chr1 exon 50768185 50768301 50768185 ID=MsaT003028.1.exon5;Parent=MsaT003028.1
Chr1 CDS 50768185 50768301 50768185 ID=cds.MsaT003028.1;Parent=MsaT003028.1
Chr1 exon 50768668 50768777 50768668 ID=MsaT003028.1.exon6;Parent=MsaT003028.1
Chr1 CDS 50768668 50768777 50768668 ID=cds.MsaT003028.1;Parent=MsaT003028.1
Chr1 exon 50771982 50772041 50771982 ID=MsaT003028.1.exon7;Parent=MsaT003028.1
Chr1 CDS 50771982 50772041 50771982 ID=cds.MsaT003028.1;Parent=MsaT003028.1
Chr1 exon 50773889 50773993 50773889 ID=MsaT003028.1.exon8;Parent=MsaT003028.1
Chr1 CDS 50773889 50773993 50773889 ID=cds.MsaT003028.1;Parent=MsaT003028.1
Gene Sequence

>MsaT003028.1

ATGAACTCTAATTCTAACTCAATGGCAGCACCAACAACAACTACAACAACTAGTGGTGGAGATGCTTCTGGTAAGAAGGTTAGAAAGCCTTACACAATTACCAAGTCAAGAGAAAGCTGGTCTGATGAAGAACATGACAAGTTTCTTGAAGCTCTTCAATTATTTGATAGAGATTGGAAGAAGATTGAAGATTTTGTTGGCTCTAAAACAGTTATTCAGATTCGAAGTCATGCCCAAAAATACTTCTTAAAGGTTCAAAAGAATGGAACACTAGCTCATGTCCCTCCTCCTCGTCCTAAGCGCAAAGCTATTCATCCTTATCCACAAAAAGCAACAAAAAATGTTTTGGTGCCACTACCAGCATCCATTGCTTTTGGCTCTTCGGCAAATACCCTTCTACCTGCAGGGTATGTCACGTGGGATGAAACGTCCATGCTGATGAATACTTGTCAGGATGAACTCAACAATCTTCAAGGAAATGAAGCTGACATTGGATCAAAGGGGATCAGCAACAGCGGTCTTAGTGGTGTTGAAGATACTAATACAAGGCTCCCTACTTCTCAAATACCAACACAAGGGACACAAAATCCCGTGATTCATGGTTTGCCGGACTTTGCTGAAGTTTACGGTTTCATTGGAAGTGTTTTTGATCCGGATACAAACGGCCATGTGCAGAAGCTGAAGGAAATGGACCCTATAAACTTTGAAACTGTTTTGTTGTTAATGAGAAACCTCACTGTCAACTTGTCTAGCCCTAATTTTGATCCCATTAAGAAGGCAATGTCAACATATGATGAGAATAGCGATGCAGTAGAAGCTAATGATGTGAAGAAGCAAACAAATGATGTATCATGTCAAACCACTACTGACCACTAG
Protein sequence

>MsaT003028.1

MNSNSNSMAAPTTTTTTSGGDASGKKVRKPYTITKSRESWSDEEHDKFLEALQLFDRDWKKIEDFVGSKTVIQIRSHAQKYFLKVQKNGTLAHVPPPRPKRKAIHPYPQKATKNVLVPLPASIAFGSSANTLLPAGYVTWDETSMLMNTCQDELNNLQGNEADIGSKGISNSGLSGVEDTNTRLPTSQIPTQGTQNPVIHGLPDFAEVYGFIGSVFDPDTNGHVQKLKEMDPINFETVLLLMRNLTVNLSSPNFDPIKKAMSTYDENSDAVEANDVKKQTNDVSCQTTTDH*