AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene014902

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene014902.t1 MTR_3g106060 90.230 174 17 0 1 174 1 174 4.62e-118 336
MS.gene014902.t1 MTR_1g013760 58.696 184 58 5 1 174 1 176 1.07e-64 200
MS.gene014902.t1 MTR_2g105060 44.805 154 71 2 29 174 58 205 1.68e-37 131
MS.gene014902.t1 MTR_4g007060 40.909 198 82 4 6 174 7 198 4.42e-34 120
MS.gene014902.t1 MTR_4g007060 40.909 198 82 4 6 174 7 198 9.70e-34 121
MS.gene014902.t1 MTR_4g007060 46.753 154 67 2 30 174 17 164 1.61e-33 120
MS.gene014902.t1 MTR_2g105060 41.481 135 65 2 48 174 2 130 9.26e-29 107
MS.gene014902.t1 MTR_1g013790 39.310 145 63 3 33 174 15 137 9.40e-23 91.7
MS.gene014902.t1 MTR_4g094412 42.222 90 42 3 85 174 191 270 6.99e-16 74.7
MS.gene014902.t1 MTR_4g094412 42.222 90 42 3 85 174 200 279 7.99e-16 74.3
MS.gene014902.t1 MTR_3g053330 25.862 232 111 6 1 174 59 287 1.54e-15 73.6
MS.gene014902.t1 MTR_7g110720 30.137 146 83 5 29 174 99 225 2.44e-14 70.1
MS.gene014902.t1 MTR_4g132430 28.333 180 94 5 30 174 118 297 2.63e-14 70.1
MS.gene014902.t1 MTR_2g023930 52.542 59 23 2 116 174 288 341 9.65e-14 68.6
MS.gene014902.t1 MTR_2g088000 50.909 55 25 1 120 174 333 385 2.72e-13 67.4
MS.gene014902.t1 MTR_4g132430 50.909 55 25 1 120 174 111 163 2.75e-13 67.0
MS.gene014902.t1 MTR_7g110720 50.000 52 26 0 123 174 201 252 3.51e-13 66.6
MS.gene014902.t1 MTR_7g009730 60.526 38 15 0 137 174 218 255 4.71e-13 66.6
MS.gene014902.t1 MTR_4g107970 60.526 38 15 0 137 174 254 291 4.94e-13 66.6
MS.gene014902.t1 MTR_4g107970 60.526 38 15 0 137 174 177 214 5.22e-13 66.2
MS.gene014902.t1 MTR_5g097490 57.692 52 19 2 122 173 238 286 8.01e-13 65.9
MS.gene014902.t1 MTR_4g049760 49.057 53 27 0 122 174 274 326 1.71e-12 65.1
MS.gene014902.t1 MTR_5g094430 67.568 37 11 1 137 173 251 286 3.41e-12 63.9
MS.gene014902.t1 MTR_5g094430 67.568 37 11 1 137 173 363 398 3.49e-12 63.9
MS.gene014902.t1 MTR_5g094430 67.568 37 11 1 137 173 229 264 3.56e-12 63.9
MS.gene014902.t1 MTR_3g031220 53.704 54 22 3 120 173 349 399 3.77e-12 63.9
MS.gene014902.t1 MTR_3g056100 67.568 37 11 1 137 173 414 449 5.48e-12 63.5
MS.gene014902.t1 MTR_3g056100 67.568 37 11 1 137 173 401 436 5.66e-12 63.5
MS.gene014902.t1 MTR_3g056100 67.568 37 11 1 137 173 270 305 5.93e-12 63.2
MS.gene014902.t1 MTR_3g056100 67.568 37 11 1 137 173 257 292 6.03e-12 63.2
MS.gene014902.t1 MTR_2g045360 47.273 55 27 1 120 174 195 247 7.83e-12 62.8
MS.gene014902.t1 MTR_5g042920 50.000 64 26 4 110 173 297 354 1.31e-11 62.4
MS.gene014902.t1 MTR_4g082580 47.619 63 27 4 111 173 256 312 1.89e-11 61.6
MS.gene014902.t1 MTR_5g074400 51.852 54 23 3 120 173 404 454 3.91e-11 60.8
MS.gene014902.t1 MTR_4g049790 47.170 53 28 0 121 173 295 347 3.92e-11 60.8
MS.gene014902.t1 MTR_7g080020 41.026 78 40 3 99 173 453 527 4.99e-11 60.8
MS.gene014902.t1 MTR_7g080000 50.000 54 24 2 120 173 416 466 7.48e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene014902.t1 AT1G80840 46.703 182 80 6 4 174 7 182 2.95e-42 143
MS.gene014902.t1 AT4G31800 39.806 206 87 5 6 174 7 212 3.07e-34 120
MS.gene014902.t1 AT4G31800 39.806 206 87 5 6 174 7 212 3.36e-34 122
MS.gene014902.t1 AT2G25000 42.763 152 68 3 29 174 1 139 1.50e-32 116
MS.gene014902.t1 AT2G25000 42.763 152 68 3 29 174 1 139 1.50e-32 116
MS.gene014902.t1 AT2G25000 42.763 152 68 3 29 174 23 161 2.51e-32 116
MS.gene014902.t1 AT2G25000 42.763 152 68 3 29 174 44 182 5.04e-32 116
MS.gene014902.t1 AT4G31800 41.096 146 67 3 48 174 2 147 3.92e-26 100
MS.gene014902.t1 AT1G62300 30.366 191 85 6 30 174 160 348 1.10e-16 77.0
MS.gene014902.t1 AT1G68150 29.050 179 90 7 28 174 98 271 1.42e-14 70.9
MS.gene014902.t1 AT4G01720 28.977 176 86 5 33 174 105 275 2.45e-14 70.1
MS.gene014902.t1 AT5G15130 63.158 38 14 0 137 174 226 263 8.09e-14 68.9
MS.gene014902.t1 AT5G15130 63.158 38 14 0 137 174 184 221 8.63e-14 68.6
MS.gene014902.t1 AT4G22070 50.909 55 25 1 120 174 281 333 9.66e-14 68.6
MS.gene014902.t1 AT4G22070 50.909 55 25 1 120 174 281 333 9.66e-14 68.6
MS.gene014902.t1 AT4G22070 50.909 55 25 1 120 174 281 333 9.66e-14 68.6
MS.gene014902.t1 AT4G22070 50.909 55 25 1 120 174 281 333 9.66e-14 68.6
MS.gene014902.t1 AT4G04450 50.909 55 25 1 120 174 182 234 2.09e-13 67.4
MS.gene014902.t1 AT4G04450 50.909 55 25 1 120 174 276 328 2.41e-13 67.4
MS.gene014902.t1 AT1G69810 38.806 67 39 1 108 174 175 239 4.67e-12 63.5
MS.gene014902.t1 AT1G69810 38.806 67 39 1 108 174 117 181 6.22e-12 63.2
MS.gene014902.t1 AT1G18860 57.895 38 16 0 137 174 238 275 6.32e-12 63.2
MS.gene014902.t1 AT5G07100 41.176 102 46 6 77 173 83 175 8.17e-12 61.6
MS.gene014902.t1 AT5G07100 41.176 102 46 6 77 173 83 175 8.17e-12 61.6
MS.gene014902.t1 AT5G07100 41.176 102 46 6 77 173 83 175 8.17e-12 61.6
MS.gene014902.t1 AT5G07100 41.176 102 46 6 77 173 83 175 8.17e-12 61.6
MS.gene014902.t1 AT5G56270 53.704 54 22 3 120 173 471 521 9.35e-12 62.8
MS.gene014902.t1 AT4G26640 67.568 37 11 1 137 173 204 239 9.99e-12 62.4
MS.gene014902.t1 AT4G26640 67.568 37 11 1 137 173 204 239 9.99e-12 62.4
MS.gene014902.t1 AT4G26640 67.568 37 11 1 137 173 204 239 9.99e-12 62.4
MS.gene014902.t1 AT4G26640 67.568 37 11 1 137 173 204 239 9.99e-12 62.4
MS.gene014902.t1 AT1G13960 50.820 61 24 4 113 173 236 290 1.10e-11 62.4
MS.gene014902.t1 AT4G26640 67.568 37 11 1 137 173 308 343 1.16e-11 62.4
MS.gene014902.t1 AT4G26640 67.568 37 11 1 137 173 340 375 1.19e-11 62.4
MS.gene014902.t1 AT4G26640 67.568 37 11 1 137 173 380 415 1.22e-11 62.4
MS.gene014902.t1 AT1G13960 50.820 61 24 4 113 173 389 443 1.48e-11 62.4
MS.gene014902.t1 AT2G04880 64.865 37 12 1 137 173 282 317 1.76e-11 62.0
MS.gene014902.t1 AT2G04880 64.865 37 12 1 137 173 306 341 1.77e-11 62.0
MS.gene014902.t1 AT5G07100 41.176 102 46 6 77 173 176 268 1.98e-11 61.6
MS.gene014902.t1 AT2G38470 62.162 37 13 1 137 173 361 396 9.96e-11 59.7

Find 38 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCCTTTCTCTTTCGCGATAT+TGG 0.191286 3.1:+84092324 None:intergenic
TCAGGTTGCTGATCAGGTTT+TGG 0.288511 3.1:-84092484 MS.gene014902:intron
ATGAATTCAGGTTGCTGATC+AGG 0.334261 3.1:-84092490 MS.gene014902:intron
TTCAAGTGCTCCTTTGCTCC+TGG 0.357212 3.1:-84091940 MS.gene014902:CDS
GGATATCAGTGGAGAAAATA+TGG 0.364647 3.1:-84092003 MS.gene014902:CDS
GCACATGTGGTTCAGTTTCT+CGG 0.370673 3.1:+84092419 None:intergenic
GAAAATTGTATCAATAGGTT+TGG 0.376161 3.1:-84092291 MS.gene014902:CDS
TATATCCTAACCGCATTAAC+AGG 0.387690 3.1:+84092601 None:intergenic
ACCAATATCGCGAAAGAGAA+AGG 0.387719 3.1:-84092325 MS.gene014902:CDS
GTGTTGAAAATTGTATCAAT+AGG 0.392499 3.1:-84092296 MS.gene014902:CDS
ACCTAAACACTCTCCCTTCT+CGG 0.392654 3.1:-84092630 MS.gene014902:CDS
CCCGAGAAGGGAGAGTGTTT+AGG 0.410406 3.1:+84092629 None:intergenic
GTCTAAGTAGTGAGAATAAG+AGG 0.450271 3.1:-84092446 MS.gene014902:CDS
CTAGAGATAATCCCTCTCCT+AGG 0.467386 3.1:-84091969 MS.gene014902:CDS
CCTAAACACTCTCCCTTCTC+GGG 0.479017 3.1:-84092629 MS.gene014902:CDS
AGAACTTACTAAGCTGGCAT+TGG 0.495787 3.1:+84092161 None:intergenic
CACAGGGCAGCCAGGAGCAA+AGG 0.503671 3.1:+84091930 None:intergenic
AATTGTAGAACTTACTAAGC+TGG 0.507761 3.1:+84092155 None:intergenic
TGTCTCCTCCTCAGTAGTAA+TGG 0.551953 3.1:+84092245 None:intergenic
GACCTCGCCGAGAGTTTCCA+AGG 0.562692 3.1:-84092205 MS.gene014902:CDS
TTAACAGGTGTGTCCCGAGA+AGG 0.571165 3.1:+84092616 None:intergenic
GAGCACTTGAAGTAAGCCCT+AGG 0.576521 3.1:+84091952 None:intergenic
TAACAGGTGTGTCCCGAGAA+GGG 0.578050 3.1:+84092617 None:intergenic
CAGTATAATTGTCGCACATG+TGG 0.579804 3.1:+84092406 None:intergenic
ATCTGTACGCACAAGAACCT+TGG 0.586094 3.1:+84092188 None:intergenic
TAGAGATAATCCCTCTCCTA+GGG 0.588394 3.1:-84091968 MS.gene014902:CDS
TTGAAGTAAGCCCTAGGAGA+GGG 0.594565 3.1:+84091958 None:intergenic
GTATTGAAGTATGTGAAGGA+TGG 0.607747 3.1:-84092024 MS.gene014902:intron
TCGGGACACACCTGTTAATG+CGG 0.614647 3.1:-84092611 MS.gene014902:intron
TTGGGTATTGAAGTATGTGA+AGG 0.631029 3.1:-84092028 MS.gene014902:intron
CCACATGGAACCAACGTGTG+TGG 0.633718 3.1:-84092665 None:intergenic
CTTGAAGTAAGCCCTAGGAG+AGG 0.642278 3.1:+84091957 None:intergenic
ACAAGAACCTTGGAAACTCT+CGG 0.643388 3.1:+84092198 None:intergenic
ATGTGAAGGATGGATATCAG+TGG 0.648222 3.1:-84092014 MS.gene014902:CDS
CAGCACCATTACTACTGAGG+AGG 0.656419 3.1:-84092250 MS.gene014902:CDS
AACCTTGGAAACTCTCGGCG+AGG 0.657343 3.1:+84092203 None:intergenic
GAGCAGCACCATTACTACTG+AGG 0.711173 3.1:-84092253 MS.gene014902:CDS
AGAGAAGTATCCACACACGT+TGG 0.751057 3.1:+84092655 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAATTAACTTATGAATTC+AGG - chr3.1:84092080-84092099 MS.gene014902:intron 15.0%
!! ATAATAAAGATATTAGTGTT+TGG - chr3.1:84092501-84092520 MS.gene014902:intron 15.0%
!!! CATAAGTTAATTTTTGAATA+TGG + chr3.1:84092075-84092094 None:intergenic 15.0%
!! ATATGGAATGTTATAATTCA+AGG + chr3.1:84092058-84092077 None:intergenic 20.0%
!!! TGTTGTCTTGATTTAATTTT+TGG - chr3.1:84092472-84092491 MS.gene014902:CDS 20.0%
! GAAAATTGTATCAATAGGTT+TGG - chr3.1:84092291-84092310 MS.gene014902:CDS 25.0%
! GTGTTGAAAATTGTATCAAT+AGG - chr3.1:84092286-84092305 MS.gene014902:CDS 25.0%
! TGTTATAATTCAAGGAAAAG+AGG + chr3.1:84092050-84092069 None:intergenic 25.0%
AATTGTAGAACTTACTAAGC+TGG + chr3.1:84092430-84092449 None:intergenic 30.0%
! GATACAATTTTCAACACTCT+CGG + chr3.1:84092283-84092302 None:intergenic 30.0%
!! GAGATGCTGAATTTGTTTTT+GGG - chr3.1:84092536-84092555 MS.gene014902:intron 30.0%
!! TGAGATGCTGAATTTGTTTT+TGG - chr3.1:84092535-84092554 MS.gene014902:intron 30.0%
GGATATCAGTGGAGAAAATA+TGG - chr3.1:84092579-84092598 MS.gene014902:intron 35.0%
GTATTGAAGTATGTGAAGGA+TGG - chr3.1:84092558-84092577 MS.gene014902:intron 35.0%
GTCTAAGTAGTGAGAATAAG+AGG - chr3.1:84092136-84092155 MS.gene014902:intron 35.0%
TATATCCTAACCGCATTAAC+AGG + chr3.1:84091984-84092003 None:intergenic 35.0%
!! TTGGGTATTGAAGTATGTGA+AGG - chr3.1:84092554-84092573 MS.gene014902:intron 35.0%
ACAAGAACCTTGGAAACTCT+CGG + chr3.1:84092387-84092406 None:intergenic 40.0%
ACCAATATCGCGAAAGAGAA+AGG - chr3.1:84092257-84092276 MS.gene014902:CDS 40.0%
AGAACTTACTAAGCTGGCAT+TGG + chr3.1:84092424-84092443 None:intergenic 40.0%
ATGTGAAGGATGGATATCAG+TGG - chr3.1:84092568-84092587 MS.gene014902:intron 40.0%
CAGTATAATTGTCGCACATG+TGG + chr3.1:84092179-84092198 None:intergenic 40.0%
TAGAGATAATCCCTCTCCTA+GGG - chr3.1:84092614-84092633 MS.gene014902:CDS 40.0%
!! ATGAATTCAGGTTGCTGATC+AGG - chr3.1:84092092-84092111 MS.gene014902:intron 40.0%
ACACACCTGTTAATGCGGTT+AGG - chr3.1:84091976-84091995 MS.gene014902:CDS 45.0%
ACCTAAACACTCTCCCTTCT+CGG - chr3.1:84091952-84091971 MS.gene014902:CDS 45.0%
ATCTGTACGCACAAGAACCT+TGG + chr3.1:84092397-84092416 None:intergenic 45.0%
CTAGAGATAATCCCTCTCCT+AGG - chr3.1:84092613-84092632 MS.gene014902:CDS 45.0%
GCACATGTGGTTCAGTTTCT+CGG + chr3.1:84092166-84092185 None:intergenic 45.0%
GCCTTTCTCTTTCGCGATAT+TGG + chr3.1:84092261-84092280 None:intergenic 45.0%
TGTCTCCTCCTCAGTAGTAA+TGG + chr3.1:84092340-84092359 None:intergenic 45.0%
TTGAAGTAAGCCCTAGGAGA+GGG + chr3.1:84092627-84092646 None:intergenic 45.0%
!! AGAGAAGTATCCACACACGT+TGG + chr3.1:84091930-84091949 None:intergenic 45.0%
!! TCAGGTTGCTGATCAGGTTT+TGG - chr3.1:84092098-84092117 MS.gene014902:intron 45.0%
CAGCACCATTACTACTGAGG+AGG - chr3.1:84092332-84092351 MS.gene014902:CDS 50.0%
CCTAAACACTCTCCCTTCTC+GGG - chr3.1:84091953-84091972 MS.gene014902:CDS 50.0%
CTTGAAGTAAGCCCTAGGAG+AGG + chr3.1:84092628-84092647 None:intergenic 50.0%
GAGCACTTGAAGTAAGCCCT+AGG + chr3.1:84092633-84092652 None:intergenic 50.0%
GAGCAGCACCATTACTACTG+AGG - chr3.1:84092329-84092348 MS.gene014902:CDS 50.0%
TAACAGGTGTGTCCCGAGAA+GGG + chr3.1:84091968-84091987 None:intergenic 50.0%
TCGGGACACACCTGTTAATG+CGG - chr3.1:84091971-84091990 MS.gene014902:CDS 50.0%
TTAACAGGTGTGTCCCGAGA+AGG + chr3.1:84091969-84091988 None:intergenic 50.0%
TTCAAGTGCTCCTTTGCTCC+TGG - chr3.1:84092642-84092661 MS.gene014902:CDS 50.0%
!! TTCTTTTTCACAGGGCAGCC+AGG + chr3.1:84092663-84092682 None:intergenic 50.0%
AACCTTGGAAACTCTCGGCG+AGG + chr3.1:84092382-84092401 None:intergenic 55.0%
!! CCCGAGAAGGGAGAGTGTTT+AGG + chr3.1:84091956-84091975 None:intergenic 55.0%
GACCTCGCCGAGAGTTTCCA+AGG - chr3.1:84092377-84092396 MS.gene014902:CDS 60.0%
CACAGGGCAGCCAGGAGCAA+AGG + chr3.1:84092655-84092674 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 84091921 84092683 84091921 ID=MS.gene014902
chr3.1 mRNA 84091921 84092683 84091921 ID=MS.gene014902.t1;Parent=MS.gene014902
chr3.1 exon 84092612 84092683 84092612 ID=MS.gene014902.t1.exon1;Parent=MS.gene014902.t1
chr3.1 CDS 84092612 84092683 84092612 ID=cds.MS.gene014902.t1;Parent=MS.gene014902.t1
chr3.1 exon 84092170 84092502 84092170 ID=MS.gene014902.t1.exon2;Parent=MS.gene014902.t1
chr3.1 CDS 84092170 84092502 84092170 ID=cds.MS.gene014902.t1;Parent=MS.gene014902.t1
chr3.1 exon 84091921 84092037 84091921 ID=MS.gene014902.t1.exon3;Parent=MS.gene014902.t1
chr3.1 CDS 84091921 84092037 84091921 ID=cds.MS.gene014902.t1;Parent=MS.gene014902.t1
Gene Sequence

>MS.gene014902

ATGGAACCAACGTGTGTGGATACTTCTCTCAACCTAAACACTCTCCCTTCTCGGGACACACCTGTTAATGCGGTTAGGATATACTATATTATACTTATAAACACATAATATCTTAGTTTTTTTTCTCCTCTTTTCCTTGAATTATAACATTCCATATTCAAAAATTAACTTATGAATTCAGGTTGCTGATCAGGTTTTGGTTGAAGAGTTGAAGCGTCTAAGTAGTGAGAATAAGAGGTTAACCGAGAAACTGAACCACATGTGCGACAATTATACTGCTTTGCGAAAGCATTTGAGTCAATTCAGTCACACAAAATTTGAAAATGAATTAGTATCACCAATATCGCGAAAGAGAAAGGCCGAGAGTGTTGAAAATTGTATCAATAGGTTTGGCTATGCTATTGCTGAGAGCAGCACCATTACTACTGAGGAGGAGACATTCAAACACAACAACATGACCTCGCCGAGAGTTTCCAAGGTTCTTGTGCGTACAGATGCATCCAATGCCAGCTTAGTAAGTTCTACAATTTCAAATTTAATCATACAGATTTTGTTGTCTTGATTTAATTTTTGGAACTATATAATAAAGATATTAGTGTTTGGCTAGTACTAACTGAGATGCTGAATTTGTTTTTGGGTATTGAAGTATGTGAAGGATGGATATCAGTGGAGAAAATATGGTCAGAAAGTCACTAGAGATAATCCCTCTCCTAGGGCTTACTTCAAGTGCTCCTTTGCTCCTGGCTGCCCTGTGAAAAAGAAG
Protein sequence

>MS.gene014902.t1

MEPTCVDTSLNLNTLPSRDTPVNAVADQVLVEELKRLSSENKRLTEKLNHMCDNYTALRKHLSQFSHTKFENELVSPISRKRKAESVENCINRFGYAIAESSTITTEEETFKHNNMTSPRVSKVLVRTDASNASLYVKDGYQWRKYGQKVTRDNPSPRAYFKCSFAPGCPVKKK