AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000245

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000245 MtrunA17_Chr1g0154071 91.613 465 27 3 15 478 42 495 0.0 858
MsaG000245 MtrunA17_Chr1g0154071 70.312 128 36 2 128 254 16 142 1.31e-52 184
MsaG000245 MtrunA17_Chr1g0154101 57.877 584 126 7 9 474 25 606 0.0 631
MsaG000245 MtrunA17_Chr1g0154101 64.596 161 52 3 115 273 2 159 1.45e-57 204
MsaG000245 MtrunA17_Chr1g0154101 31.014 345 215 8 137 474 503 831 1.68e-35 140
MsaG000245 MtrunA17_Chr1g0154131 62.134 478 116 8 15 472 40 472 0.0 565
MsaG000245 MtrunA17_Chr1g0154131 66.875 160 50 3 115 273 2 159 3.67e-61 207
MsaG000245 MtrunA17_Chr1g0154211 54.962 393 115 7 126 475 9 382 1.03e-139 407
MsaG000245 MtrunA17_Chr1g0154211 66.406 128 24 1 15 123 37 164 1.66e-49 174
MsaG000245 MtrunA17_Chr1g0154191 56.150 374 122 7 124 474 6 360 3.09e-129 379
MsaG000245 MtrunA17_Chr1g0154191 65.185 135 28 1 15 130 37 171 4.83e-51 177
MsaG000245 MtrunA17_Chr1g0154111 54.688 384 123 11 124 478 10 371 2.00e-123 372
MsaG000245 MtrunA17_Chr1g0154111 66.165 133 27 1 15 129 41 173 5.17e-51 182
MsaG000245 MtrunA17_Chr1g0154111 67.826 115 31 2 14 125 367 478 2.60e-40 152
MsaG000245 MtrunA17_Chr1g0154111 49.020 204 75 8 153 328 368 570 3.17e-39 149
MsaG000245 MtrunA17_Chr1g0154171 54.270 363 130 7 126 474 9 349 1.54e-120 357
MsaG000245 MtrunA17_Chr1g0154171 66.667 129 30 1 15 130 37 165 5.77e-51 177
MsaG000245 MtrunA17_Chr1g0154161 54.131 351 104 7 126 473 16 312 1.31e-113 338
MsaG000245 MtrunA17_Chr1g0154161 81.443 97 18 0 15 111 45 141 1.63e-49 172
MsaG000245 MtrunA17_Chr1g0154151 52.493 341 103 10 153 474 19 319 1.30e-97 297
MsaG000245 MtrunA17_Chr1g0154151 60.870 138 46 1 1 130 5 142 4.55e-51 176
MsaG000245 MtrunA17_Chr1g0154041 47.009 351 161 8 139 474 15 355 3.86e-86 276
MsaG000245 MtrunA17_Chr1g0154041 31.653 357 226 9 123 474 241 584 1.72e-35 139
MsaG000245 MtrunA17_Chr1g0154041 38.372 86 52 1 16 101 31 115 4.64e-13 71.2
MsaG000245 MtrunA17_Chr1g0154251 41.602 387 162 11 126 454 13 393 5.05e-77 249
MsaG000245 MtrunA17_Chr1g0154251 74.227 97 25 0 15 111 41 137 2.92e-44 162
MsaG000245 MtrunA17_Chr1g0154241 46.953 279 89 7 121 349 3 272 1.03e-66 215
MsaG000245 MtrunA17_Chr1g0154241 78.218 101 22 0 15 115 36 136 7.33e-51 174
MsaG000245 MtrunA17_Chr6g0464121 80.000 75 15 0 400 474 122 196 7.31e-34 130
MsaG000245 MtrunA17_Chr1g0154121 62.500 80 27 2 397 474 2 80 2.52e-25 99.8
MsaG000245 MtrunA17_Chr7g0233561 26.087 345 197 11 140 472 19 317 1.66e-21 95.1
MsaG000245 MtrunA17_Chr7g0233561 25.818 275 130 13 12 217 27 296 2.50e-13 70.9
MsaG000245 MtrunA17_Chr3g0131891 25.948 343 190 12 140 472 20 308 1.83e-19 89.4
MsaG000245 MtrunA17_Chr7g0233541 26.946 334 179 16 154 472 2 285 2.08e-18 85.5
MsaG000245 MtrunA17_Chr7g0233541 31.356 118 69 2 16 124 2 116 3.17e-11 64.3
MsaG000245 MtrunA17_Chr8g0390841 22.663 353 220 16 133 478 35 341 1.53e-16 82.0
MsaG000245 MtrunA17_Chr7g0233571 29.104 134 89 3 135 266 5 134 4.29e-12 65.9
MsaG000245 MtrunA17_Chr7g0233571 37.079 89 56 0 16 104 26 114 1.71e-11 63.9
MsaG000245 MtrunA17_Chr5g0429931 36.585 82 52 0 12 93 7 88 4.44e-12 66.2
MsaG000245 MtrunA17_Chr7g0233531 39.474 76 45 1 154 229 2 76 5.45e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000245 AT4G33280.1 31.176 340 175 10 126 454 11 302 2.86e-42 153
MsaG000245 AT4G33280.1 50.000 112 55 1 15 125 38 149 6.75e-30 119
MsaG000245 AT4G33280.3 28.646 384 188 11 126 454 11 363 2.23e-38 144
MsaG000245 AT4G33280.3 50.926 108 51 2 15 121 38 144 3.88e-29 119
MsaG000245 AT4G33280.2 50.388 129 62 2 126 253 11 138 3.79e-37 138
MsaG000245 AT4G33280.2 50.926 108 51 2 15 121 38 144 3.55e-30 119
MsaG000245 AT3G18990.1 24.716 352 222 11 137 467 5 334 1.92e-20 92.8
MsaG000245 AT3G18990.1 40.000 75 45 0 16 90 22 96 1.04e-11 66.6
MsaG000245 AT3G18990.2 24.716 352 222 11 137 467 5 334 4.25e-20 92.4
MsaG000245 AT3G18990.2 40.000 75 45 0 16 90 22 96 1.42e-11 66.2
MsaG000245 AT4G34400.2 36.782 87 55 0 13 99 28 114 1.37e-15 79.0
MsaG000245 AT4G34400.2 35.000 100 61 2 137 236 17 112 2.26e-12 68.9
MsaG000245 AT4G34400.1 36.782 87 55 0 13 99 28 114 1.37e-15 79.0
MsaG000245 AT4G34400.1 35.000 100 61 2 137 236 17 112 2.26e-12 68.9
MsaG000245 AT3G06220.1 28.283 99 71 0 16 114 25 123 1.17e-13 69.7
MsaG000245 AT3G06220.1 27.869 122 87 1 140 261 11 131 6.41e-11 61.6
MsaG000245 AT3G06160.5 29.464 112 71 1 15 118 24 135 4.86e-12 67.4
MsaG000245 AT3G06160.4 29.464 112 71 1 15 118 24 135 4.86e-12 67.4
MsaG000245 AT3G06160.3 29.464 112 71 1 15 118 24 135 4.86e-12 67.4
MsaG000245 AT3G06160.1 29.464 112 71 1 15 118 39 150 5.04e-12 67.4
MsaG000245 AT5G60130.2 25.591 254 132 8 15 214 28 278 5.46e-12 67.0
MsaG000245 AT3G06160.2 29.464 112 71 1 15 118 83 194 5.73e-12 67.8
MsaG000245 AT5G60130.5 39.773 88 48 2 15 97 28 115 4.41e-11 63.5
MsaG000245 AT5G66980.1 42.045 88 44 3 15 97 24 109 9.43e-11 63.5

Find 95 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAACTCCACTAGGACCTTTA+AGG 0.191352 1:+3266403 None:intergenic
CAATGTTTATTAGTCTTAAA+TGG 0.221751 1:-3267626 MsaT000245.1:CDS
AACAAGTTGTCGTTCAAAAT+TGG 0.231202 1:+3267188 None:intergenic
CCAGAAAATGTGACCCTTAA+AGG 0.236805 1:-3266417 MsaT000245.1:CDS
GATCACCAAAAGCTGCTAAT+TGG 0.248794 1:-3265996 MsaT000245.1:CDS
TCTACCTTCCCACTTCTATT+CGG 0.257101 1:+3264988 None:intergenic
CACTGAATAGCTGCGGTCTT+AGG 0.262227 1:+3266060 None:intergenic
CCAGCAAATGTGACACTTAA+AGG 0.270345 1:-3267540 MsaT000245.1:CDS
CCTTTAAGTGTCACATTTGC+TGG 0.308650 1:+3267540 None:intergenic
TATGGGCGGAAGACATTTAC+TGG 0.310032 1:-3267251 MsaT000245.1:CDS
ATCACCAAAAGCTGCTAATT+GGG 0.331816 1:-3265995 MsaT000245.1:CDS
GCACCCCAATTAGCAGCTTT+TGG 0.336856 1:+3265991 None:intergenic
GACGTTTATACCTTTGTTGC+AGG 0.338919 1:-3267604 MsaT000245.1:CDS
CAAAATTGGTGTGAAGCAAT+AGG 0.343511 1:+3267202 None:intergenic
GAGTTACATGGAAGAATATA+AGG 0.351517 1:-3266386 MsaT000245.1:CDS
TGGTGATCTTCTTCTCCTCT+TGG 0.352191 1:+3266011 None:intergenic
CTACCTTCCCACTTCTATTC+GGG 0.356067 1:+3264989 None:intergenic
AGCGGAATTGTGTGGAATAT+AGG 0.359861 1:-3267513 MsaT000245.1:CDS
GCGGAATTGTGTGGAATATA+GGG 0.383233 1:-3267512 MsaT000245.1:CDS
ATCGCTGAGGTTGGAAAAGA+TGG 0.386379 1:-3264301 MsaT000245.1:CDS
GCATCATCCGTGAACTGCTC+AGG 0.396249 1:+3266087 None:intergenic
AAGGAAATCATTCTGCTTCA+AGG 0.417749 1:+3267425 None:intergenic
AAAATCGGTGTATCGCTGTT+TGG 0.430651 1:+3264499 None:intergenic
CTCTCTATGTGGAGGATGGA+TGG 0.441035 1:-3264407 MsaT000245.1:CDS
TTTAACAAAATATGGAAATG+AGG 0.449590 1:+3264885 None:intergenic
CACCATTGTACTTAAATACA+AGG 0.450916 1:+3267406 None:intergenic
ACTGAATAGCTGCGGTCTTA+GGG 0.455599 1:+3266061 None:intergenic
GTCAATACTGCTTCTAATGC+TGG 0.468501 1:-3266117 MsaT000245.1:CDS
CTTCCCACTTCTATTCGGGC+TGG 0.473485 1:+3264993 None:intergenic
CAATGGTGAATCACACTTTG+AGG 0.476504 1:-3267391 MsaT000245.1:CDS
GAAATGAGGAGGAAAATGAT+TGG 0.481463 1:+3264899 None:intergenic
CAGTGTCCCTTCCTACCAAC+CGG 0.487408 1:-3266042 MsaT000245.1:CDS
CATCATCCGTGAACTGCTCA+GGG 0.491192 1:+3266088 None:intergenic
ACGAGAACCACTGACATTGA+AGG 0.493660 1:+3264852 None:intergenic
CAATGGTGAATCGCACTTTG+AGG 0.494915 1:-3266265 MsaT000245.1:CDS
AAAATTGGTGTGAAGCAATA+GGG 0.495077 1:+3267203 None:intergenic
AACTCCACTAGGACCTTTAA+GGG 0.495173 1:+3266404 None:intergenic
TTCGGAAGTGCCTGCAACAA+AGG 0.497819 1:+3267594 None:intergenic
GTTCGCATCATCGCTGAGGT+TGG 0.499004 1:-3264310 MsaT000245.1:CDS
CTATTTACTTCACGAACGGT+TGG 0.500392 1:-3267470 MsaT000245.1:CDS
TGGAAATACTTTCTGTGAGA+AGG 0.503331 1:-3267355 MsaT000245.1:CDS
CCCCTTGTGCTGTTTGAGCA+TGG 0.505067 1:+3266178 None:intergenic
GGGTGCGAGAGCACATGCTT+GGG 0.514835 1:-3265974 MsaT000245.1:CDS
TTCCTTGTATTTAAGTACAA+TGG 0.518389 1:-3267408 MsaT000245.1:CDS
GATGCGCCGTCGAAAATTGA+TGG 0.518850 1:+3264524 None:intergenic
ACTGTATTCAACACCACCAT+TGG 0.523887 1:+3267287 None:intergenic
CTGTTTACTTCGTGGACGGT+TGG 0.525501 1:-3266344 MsaT000245.1:CDS
TGATTCCCCTGAGCAGTTCA+CGG 0.528517 1:-3266094 MsaT000245.1:CDS
AAATGAGGAGGAAAATGATT+GGG 0.529211 1:+3264900 None:intergenic
AAAATTTGAAGGGAGAACAC+TGG 0.530161 1:-3264471 MsaT000245.1:CDS
GGCACTGTTTACTTCGTGGA+CGG 0.546441 1:-3266348 MsaT000245.1:CDS
ATGCGCCGTCGAAAATTGAT+GGG 0.548600 1:+3264525 None:intergenic
CACCATTGTACTTACAGACA+AGG 0.550322 1:+3266280 None:intergenic
GGGGTGCGAGAGCACATGCT+TGG 0.551774 1:-3265975 MsaT000245.1:CDS
TGTTCGTGGCAATAGCATCA+AGG 0.552778 1:-3264380 MsaT000245.1:CDS
GGCCATGCTCAAACAGCACA+AGG 0.557535 1:-3266180 MsaT000245.1:CDS
AAGGTCCTAGTGGAGTTACA+TGG 0.559188 1:-3266398 MsaT000245.1:CDS
CCATGCTCAAACAGCACAAG+GGG 0.563471 1:-3266178 MsaT000245.1:CDS
AGATGGCACTGTTTACTTCG+TGG 0.564148 1:-3266352 MsaT000245.1:CDS
GATACTATTTACTTCACGAA+CGG 0.565840 1:-3267474 MsaT000245.1:CDS
GTCACTCTCTATGTGGAGGA+TGG 0.566600 1:-3264411 MsaT000245.1:CDS
GCAGCCAGCCCGAATAGAAG+TGG 0.568438 1:-3264997 MsaT000245.1:CDS
AACAAAATATGGAAATGAGG+AGG 0.576763 1:+3264888 None:intergenic
CGTGGCAATAGCATCAAGGT+TGG 0.577346 1:-3264376 MsaT000245.1:CDS
ATTAAAGCCTTCAATGTCAG+TGG 0.584287 1:-3264859 MsaT000245.1:CDS
CATACAAGTCACTCTCTATG+TGG 0.592515 1:-3264418 MsaT000245.1:CDS
TATTCAACACCACCATTGGA+AGG 0.597082 1:+3267291 None:intergenic
AATCATTCTGCTTCAAGGAG+TGG 0.605301 1:+3267430 None:intergenic
GCCATGCTCAAACAGCACAA+GGG 0.608681 1:-3266179 MsaT000245.1:CDS
TCACCAAAAGCTGCTAATTG+GGG 0.618986 1:-3265994 MsaT000245.1:CDS
ATAAGGCTGACAACTAGAGA+TGG 0.621631 1:-3266369 MsaT000245.1:CDS
CAGCCAGCCCGAATAGAAGT+GGG 0.622825 1:-3264996 MsaT000245.1:CDS
TTCTTCCATGTAACTCCACT+AGG 0.623495 1:+3266393 None:intergenic
AAGGTCCTAGCGGAATTGTG+TGG 0.623981 1:-3267521 MsaT000245.1:CDS
TCGTGTTCGCATCATCGCTG+AGG 0.627143 1:-3264314 MsaT000245.1:CDS
GCTCATAGTCCTTCCAATGG+TGG 0.627536 1:-3267300 MsaT000245.1:CDS
AAAAGCTAGTCTTTCAACGA+GGG 0.627778 1:+3264269 None:intergenic
ATATTCCACACAATTCCGCT+AGG 0.630389 1:+3267516 None:intergenic
GTGACCCTTAAAGGTCCTAG+TGG 0.630968 1:-3266408 MsaT000245.1:CDS
TCGCTGAGGTTGGAAAAGAT+GGG 0.633760 1:-3264300 MsaT000245.1:CDS
CAAGCTCATAGTCCTTCCAA+TGG 0.640216 1:-3267303 MsaT000245.1:CDS
AAAGTCAACAGCACTTGTTG+AGG 0.643971 1:-3264932 MsaT000245.1:CDS
AATATAGGGCTTACAACTAG+AGG 0.644207 1:-3267498 MsaT000245.1:CDS
CAGCCCGAATAGAAGTGGGA+AGG 0.644571 1:-3264992 MsaT000245.1:CDS
TTCCTTGTCTGTAAGTACAA+TGG 0.651999 1:-3266282 MsaT000245.1:CDS
CAACCGGCAAAAGAACCAAG+AGG 0.662281 1:-3266026 MsaT000245.1:CDS
ACAAGTCACTCTCTATGTGG+AGG 0.663448 1:-3264415 MsaT000245.1:CDS
AAGCTCCGCTGAAAATACAA+TGG 0.674487 1:+3264962 None:intergenic
ACTTGTAACAAGCAACACCC+AGG 0.683080 1:-3265949 MsaT000245.1:intron
GAAGGGACACTGAATAGCTG+CGG 0.686057 1:+3266053 None:intergenic
GTGACACTTAAAGGTCCTAG+CGG 0.686784 1:-3267531 MsaT000245.1:CDS
TGCGCCGTCGAAAATTGATG+GGG 0.710577 1:+3264526 None:intergenic
ATCATCCGTGAACTGCTCAG+GGG 0.723242 1:+3266089 None:intergenic
TAAAAGCTAGTCTTTCAACG+AGG 0.738663 1:+3264268 None:intergenic
CATGCTCAAACAGCACAAGG+GGG 0.765396 1:-3266177 MsaT000245.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 3264282 3267646 3264282 ID=MsaG000245
Chr1 mRNA 3264282 3267646 3264282 ID=MsaT000245.1;Parent=MsaG000245
Chr1 exon 3264282 3264554 3264282 ID=MsaT000245.1.exon4;Parent=MsaT000245.1
Chr1 CDS 3264282 3264554 3264282 ID=cds.MsaT000245.1;Parent=MsaT000245.1
Chr1 exon 3264846 3265021 3264846 ID=MsaT000245.1.exon3;Parent=MsaT000245.1
Chr1 CDS 3264846 3265021 3264846 ID=cds.MsaT000245.1;Parent=MsaT000245.1
Chr1 exon 3265950 3266481 3265950 ID=MsaT000245.1.exon2;Parent=MsaT000245.1
Chr1 CDS 3265950 3266481 3265950 ID=cds.MsaT000245.1;Parent=MsaT000245.1
Chr1 exon 3267191 3267646 3267191 ID=MsaT000245.1.exon1;Parent=MsaT000245.1
Chr1 CDS 3267191 3267646 3267191 ID=cds.MsaT000245.1;Parent=MsaT000245.1
Gene Sequence

>MsaT000245.1

ATGTTTATTAGTCTTAAATGGACGTTTATACCTTTGTTGCAGGCACTTCCGAAAACATTTTCAGACAATTTAAAGAAGAAGTTGCCAGCAAATGTGACACTTAAAGGTCCTAGCGGAATTGTGTGGAATATAGGGCTTACAACTAGAGGTGATACTATTTACTTCACGAACGGTTGGCAAAAATTCGTGAAAGACCACTCCTTGAAGCAGAATGATTTCCTTGTATTTAAGTACAATGGTGAATCACACTTTGAGGTTTTAATCTTTAATGGAAATACTTTCTGTGAGAAGGCAGCGTCATATTTTGTTCAAAAATGTGGACAAGCTCATAGTCCTTCCAATGGTGGTGTTGAATACAGTTCACCTGAAAAATTATGGGCGGAAGACATTTACTGGAGCTATTTCAAATTCACACATTTCACCCTATTGCTTCACACCAATTTTGAACGACAACTTGCACTTCCTAAAACATTTTCAGACAATTTAAATAAGAAGTTGCCAGAAAATGTGACCCTTAAAGGTCCTAGTGGAGTTACATGGAAGAATATAAGGCTGACAACTAGAGATGGCACTGTTTACTTCGTGGACGGTTGGCAACAATTCATGAACGATCACTCGTTGAAAGCTAATGATTTCCTTGTCTGTAAGTACAATGGTGAATCGCACTTTGAGGTTTTAATCTTTGATGGAGAAAGCTTCTGCGAGAAAGAAGCTTCTTATTTTGTCGAAAAATGCGGCCATGCTCAAACAGCACAAGGGGGTAGCAATGCATCGCAAACAAACAATTCTGTTGAAGAAGTCAATACTGCTTCTAATGCTGGTGATTCCCCTGAGCAGTTCACGGATGATGCAGTCCCTAAGACCGCAGCTATTCAGTGTCCCTTCCTACCAACCGGCAAAAGAACCAAGAGGAGAAGAAGATCACCAAAAGCTGCTAATTGGGGTGCGAGAGCACATGCTTGGGTGACTTGTAACAAGCAACACCCAGAGGCAGCCAGCCCGAATAGAAGTGGGAAGGTAGACGACCATTGTATTTTCAGCGGAGCTTCACTGTCAAAGTCAACAGCACTTGTTGAGGAAAAGATAGCCCAATCATTTTCCTCCTCATTTCCATATTTTGTTAAAATAATTAAAGCCTTCAATGTCAGTGGTTCTCGTACTATTAATATACCCCATCAATTTTCGACGGCGCATCTTCCAAACAGCGATACACCGATTTTTCTTCAAAATTTGAAGGGAGAACACTGGCTTGTTAATTCTGTTACTAAAACTAAAATACATACAAGTCACTCTCTATGTGGAGGATGGATGGATTTTGTTCGTGGCAATAGCATCAAGGTTGGAGATGTCTGCATTTTCGAACTTGTACAAGAGTGTGAATTTCGTGTTCGCATCATCGCTGAGGTTGGAAAAGATGGGCTAGTACTCCCTCGTTGA
Protein sequence

>MsaT000245.1

MFISLKWTFIPLLQALPKTFSDNLKKKLPANVTLKGPSGIVWNIGLTTRGDTIYFTNGWQKFVKDHSLKQNDFLVFKYNGESHFEVLIFNGNTFCEKAASYFVQKCGQAHSPSNGGVEYSSPEKLWAEDIYWSYFKFTHFTLLLHTNFERQLALPKTFSDNLNKKLPENVTLKGPSGVTWKNIRLTTRDGTVYFVDGWQQFMNDHSLKANDFLVCKYNGESHFEVLIFDGESFCEKEASYFVEKCGHAQTAQGGSNASQTNNSVEEVNTASNAGDSPEQFTDDAVPKTAAIQCPFLPTGKRTKRRRRSPKAANWGARAHAWVTCNKQHPEAASPNRSGKVDDHCIFSGASLSKSTALVEEKIAQSFSSSFPYFVKIIKAFNVSGSRTINIPHQFSTAHLPNSDTPIFLQNLKGEHWLVNSVTKTKIHTSHSLCGGWMDFVRGNSIKVGDVCIFELVQECEFRVRIIAEVGKDGLVLPR*