AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene94221

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene94221.t1 MTR_5g083110 98.068 207 3 1 1 206 1 207 5.32e-146 406
MS.gene94221.t1 MTR_3g071510 50.952 210 92 6 1 206 1 203 3.26e-56 178
MS.gene94221.t1 MTR_3g465550 46.561 189 76 4 38 206 18 201 3.70e-48 157
MS.gene94221.t1 MTR_5g072400 41.102 236 93 6 1 205 1 221 1.94e-44 149
MS.gene94221.t1 MTR_8g038440 55.085 118 49 2 91 204 103 220 1.31e-35 126
MS.gene94221.t1 MTR_7g090230 52.419 124 57 2 84 205 268 391 1.67e-35 129
MS.gene94221.t1 MTR_3g017490 53.509 114 52 1 93 205 114 227 3.06e-35 125
MS.gene94221.t1 MTR_1g051180 52.586 116 54 1 90 204 205 320 3.64e-33 122
MS.gene94221.t1 MTR_7g104720 46.610 118 62 1 89 206 256 372 1.44e-31 119
MS.gene94221.t1 MTR_1g090400 47.863 117 59 2 89 204 220 335 4.42e-31 117
MS.gene94221.t1 MTR_7g010090 42.105 152 84 2 58 205 231 382 1.88e-28 110
MS.gene94221.t1 MTR_7g106500 45.763 118 60 3 89 204 121 236 1.84e-26 102
MS.gene94221.t1 MTR_6g011640 42.500 120 61 3 95 206 234 353 1.64e-25 102
MS.gene94221.t1 MTR_8g106900 48.485 99 51 0 89 187 118 216 2.16e-24 97.4
MS.gene94221.t1 MTR_8g099665 43.548 124 62 3 89 204 210 333 4.43e-24 98.2
MS.gene94221.t1 MTR_3g030520 37.600 125 70 3 89 205 130 254 4.90e-19 83.2
MS.gene94221.t1 MTR_5g048870 41.935 93 51 1 89 178 64 156 2.93e-15 70.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene94221.t1 AT5G58530 50.000 140 60 2 76 206 96 234 2.79e-38 133
MS.gene94221.t1 AT5G13810 54.310 116 52 1 90 204 123 238 1.93e-36 129
MS.gene94221.t1 AT2G41330 50.877 114 54 2 93 204 253 366 3.92e-32 120
MS.gene94221.t1 AT3G57070 48.305 118 58 2 90 204 264 381 9.41e-32 119
MS.gene94221.t1 AT5G39865 47.581 124 54 2 93 205 224 347 1.33e-28 110
MS.gene94221.t1 AT4G10630 45.669 127 58 2 89 204 171 297 1.53e-27 107
MS.gene94221.t1 AT3G28850 46.400 125 54 4 93 205 250 373 4.29e-27 107
MS.gene94221.t1 AT5G06470 44.828 116 62 2 89 204 84 197 2.47e-26 101
MS.gene94221.t1 AT1G64500 43.548 124 64 2 89 206 207 330 5.74e-26 103
MS.gene94221.t1 AT1G32760 37.576 165 86 4 26 187 107 257 1.11e-23 96.3
MS.gene94221.t1 AT5G03870 46.078 102 55 0 89 190 232 333 2.00e-23 96.7
MS.gene94221.t1 AT5G01420 44.915 118 64 1 89 205 251 368 6.01e-23 95.5
MS.gene94221.t1 AT3G11773 39.823 113 66 2 95 206 7 118 3.64e-21 85.9
MS.gene94221.t1 AT3G11773 39.474 76 45 1 129 204 92 166 2.00e-11 61.2

Find 61 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGTAATGTGGCCGCCAAAT+TGG 0.239495 5.4:-65880669 None:intergenic
CGGAATAGTGAAGGAGATTT+TGG 0.249394 5.4:+65880505 None:intergenic
GTGTGACGTTCTTGCGGTTC+AGG 0.271638 5.4:+65880230 None:intergenic
AGGGAGATTGTTTGTGGTGG+TGG 0.291231 5.4:+65880424 None:intergenic
CTCGGTGAAGCTAACCAATT+TGG 0.313208 5.4:+65880655 None:intergenic
TGGTGGTGGAGCGGTGGTTC+GGG 0.327903 5.4:+65880438 None:intergenic
GTGGTGGTGGAGCGGTGGTT+CGG 0.343650 5.4:+65880437 None:intergenic
GGGAGGGAGATTGTTTGTGG+TGG 0.420392 5.4:+65880421 None:intergenic
GGTGGTTCGGGAGGCTGATA+AGG 0.427466 5.4:+65880450 None:intergenic
TGAAGTTGATAGAGCGAGTT+CGG 0.441738 5.4:+65880587 None:intergenic
GGAGGGAGGGAGATTGTTTG+TGG 0.455777 5.4:+65880418 None:intergenic
GCAAGAACGTCACACTTCCT+AGG 0.457073 5.4:-65880222 MS.gene94221:CDS
GCGACGGTGGTGGTGAATTA+CGG 0.459130 5.4:+65880626 None:intergenic
TAGAGTTTCAATGTCTTTGA+AGG 0.474062 5.4:+65880555 None:intergenic
GGCTGATAAGGCGCGGAGGA+AGG 0.507767 5.4:+65880462 None:intergenic
AGCTGAATCGTTTGATCGAA+CGG 0.508185 5.4:-65880135 MS.gene94221:CDS
GCGGCGGATTACGCGGAGGC+TGG 0.521946 5.4:+65880363 None:intergenic
GATTGTTTGTGGTGGTGGAG+CGG 0.530639 5.4:+65880429 None:intergenic
CGCGTTCGTCGGTGATGACG+CGG 0.534540 5.4:+65880296 None:intergenic
TGGTGGAGCGGTGGTTCGGG+AGG 0.536147 5.4:+65880441 None:intergenic
CGGTGATGACGCGGAAGTTG+CGG 0.536191 5.4:+65880305 None:intergenic
TAAGGCGCGGAGGAAGGTGG+TGG 0.541659 5.4:+65880468 None:intergenic
CAAGAACGTCACACTTCCTA+GGG 0.546669 5.4:-65880221 MS.gene94221:CDS
AACGGTTGTGATTGCTGTGG+AGG 0.554704 5.4:-65880094 MS.gene94221:CDS
GGTGAAGCTAACCAATTTGG+CGG 0.564806 5.4:+65880658 None:intergenic
TGATAAGGCGCGGAGGAAGG+TGG 0.566083 5.4:+65880465 None:intergenic
GGTGAATTACGGTGGCGGCT+CGG 0.567412 5.4:+65880637 None:intergenic
CAATGTAACGGTGACGGCGA+CGG 0.571632 5.4:+65880610 None:intergenic
GAGCGAGTTCGGCAATGTAA+CGG 0.572770 5.4:+65880598 None:intergenic
AACGGTGACGGCGACGGTGG+TGG 0.574135 5.4:+65880616 None:intergenic
GATTGAGACATCGCGTTCGT+CGG 0.574663 5.4:+65880285 None:intergenic
CGCGGCAGTCGTTGTATGTG+CGG 0.574917 5.4:+65880344 None:intergenic
TTCGTCGGCGGAGTTTACAT+CGG 0.580690 5.4:-65880196 MS.gene94221:CDS
TGTAACGGTGACGGCGACGG+TGG 0.584819 5.4:+65880613 None:intergenic
TAGGAAGTGTGACGTTCTTG+CGG 0.585484 5.4:+65880224 None:intergenic
CAAACAATCTCCCTCCCTCC+CGG 0.598113 5.4:-65880415 MS.gene94221:CDS
GTTGCGGAGGATTGATCTGA+CGG 0.599374 5.4:+65880321 None:intergenic
CTGATGCGGCGGAATAGTGA+AGG 0.603153 5.4:+65880496 None:intergenic
CAACCGTTCATATTCGACTT+CGG 0.606454 5.4:+65880109 None:intergenic
ACGGTTGTGATTGCTGTGGA+GGG 0.607912 5.4:-65880093 MS.gene94221:CDS
TGTATGTGCGGCGGATTACG+CGG 0.616823 5.4:+65880356 None:intergenic
GGCAGTCGTTGTATGTGCGG+CGG 0.620254 5.4:+65880347 None:intergenic
ACTCCGCCGACGAAAACCCT+AGG 0.629669 5.4:+65880205 None:intergenic
GTCGGCGGAGTTTACATCGG+CGG 0.630455 5.4:-65880193 MS.gene94221:CDS
TGGTGGAGATTCTGATGCGG+CGG 0.632080 5.4:+65880485 None:intergenic
TGATGACGCGGAAGTTGCGG+AGG 0.632748 5.4:+65880308 None:intergenic
GTGGTGGTGAATTACGGTGG+CGG 0.632999 5.4:+65880632 None:intergenic
GTTCGGCAATGTAACGGTGA+CGG 0.636544 5.4:+65880604 None:intergenic
TTCGGGAGGCTGATAAGGCG+CGG 0.636890 5.4:+65880455 None:intergenic
TGTTTGTGGTGGTGGAGCGG+TGG 0.642440 5.4:+65880432 None:intergenic
TTACATCGGCGGCGTTGACG+AGG 0.647643 5.4:-65880182 MS.gene94221:CDS
GTGAAACAGTTACACGAAAG+CGG 0.662420 5.4:-65880160 MS.gene94221:CDS
AGGTGGTGGAGATTCTGATG+CGG 0.687798 5.4:+65880482 None:intergenic
TTACCGAAGTCGAATATGAA+CGG 0.689259 5.4:-65880112 MS.gene94221:CDS
GGATTTCGTTGAGTTCGTCG+CGG 0.709368 5.4:+65880251 None:intergenic
ATGTGCGGCGGATTACGCGG+AGG 0.712042 5.4:+65880359 None:intergenic
ATGAACGGTTGTGATTGCTG+TGG 0.715120 5.4:-65880097 MS.gene94221:CDS
ACGGTGGTGGTGAATTACGG+TGG 0.721566 5.4:+65880629 None:intergenic
GGGAGGCTGATAAGGCGCGG+AGG 0.727383 5.4:+65880458 None:intergenic
GGAGGATTGATCTGACGGCG+CGG 0.757712 5.4:+65880326 None:intergenic
TGGTGAAGTAAACGACGACG+CGG 0.781889 5.4:+65880383 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TAGAGTTTCAATGTCTTTGA+AGG + chr5.4:65880180-65880199 None:intergenic 30.0%
!! AATTTGGTTCAGGTTTTTCT+TGG + chr5.4:65880205-65880224 None:intergenic 30.0%
!! GAAGGAGATTTTGGTAAATT+TGG + chr5.4:65880221-65880240 None:intergenic 30.0%
!! GATTTTGGTAAATTTGGTTC+AGG + chr5.4:65880215-65880234 None:intergenic 30.0%
TTACCGAAGTCGAATATGAA+CGG - chr5.4:65880620-65880639 MS.gene94221:CDS 35.0%
AGCTGAATCGTTTGATCGAA+CGG - chr5.4:65880597-65880616 MS.gene94221:CDS 40.0%
CAACCGTTCATATTCGACTT+CGG + chr5.4:65880626-65880645 None:intergenic 40.0%
GTGAAACAGTTACACGAAAG+CGG - chr5.4:65880572-65880591 MS.gene94221:CDS 40.0%
! CGGAATAGTGAAGGAGATTT+TGG + chr5.4:65880230-65880249 None:intergenic 40.0%
!! TGAAGTTGATAGAGCGAGTT+CGG + chr5.4:65880148-65880167 None:intergenic 40.0%
ATGAACGGTTGTGATTGCTG+TGG - chr5.4:65880635-65880654 MS.gene94221:CDS 45.0%
CAAGAACGTCACACTTCCTA+GGG - chr5.4:65880511-65880530 MS.gene94221:CDS 45.0%
CTCGGTGAAGCTAACCAATT+TGG + chr5.4:65880080-65880099 None:intergenic 45.0%
GGTGAAGCTAACCAATTTGG+CGG + chr5.4:65880077-65880096 None:intergenic 45.0%
! ACACTTCCTAGGGTTTTCGT+CGG - chr5.4:65880521-65880540 MS.gene94221:CDS 45.0%
! TAGGAAGTGTGACGTTCTTG+CGG + chr5.4:65880511-65880530 None:intergenic 45.0%
AACGGTTGTGATTGCTGTGG+AGG - chr5.4:65880638-65880657 MS.gene94221:CDS 50.0%
ACGGTTGTGATTGCTGTGGA+GGG - chr5.4:65880639-65880658 MS.gene94221:CDS 50.0%
AGGGAGATTGTTTGTGGTGG+TGG + chr5.4:65880311-65880330 None:intergenic 50.0%
GAGCGAGTTCGGCAATGTAA+CGG + chr5.4:65880137-65880156 None:intergenic 50.0%
GATTGAGACATCGCGTTCGT+CGG + chr5.4:65880450-65880469 None:intergenic 50.0%
GCAAGAACGTCACACTTCCT+AGG - chr5.4:65880510-65880529 MS.gene94221:CDS 50.0%
GGATTTCGTTGAGTTCGTCG+CGG + chr5.4:65880484-65880503 None:intergenic 50.0%
GTTCGGCAATGTAACGGTGA+CGG + chr5.4:65880131-65880150 None:intergenic 50.0%
GTTGCGGAGGATTGATCTGA+CGG + chr5.4:65880414-65880433 None:intergenic 50.0%
TGGTGAAGTAAACGACGACG+CGG + chr5.4:65880352-65880371 None:intergenic 50.0%
TTCGTCGGCGGAGTTTACAT+CGG - chr5.4:65880536-65880555 MS.gene94221:CDS 50.0%
!! AGGTGGTGGAGATTCTGATG+CGG + chr5.4:65880253-65880272 None:intergenic 50.0%
!! GATTGTTTGTGGTGGTGGAG+CGG + chr5.4:65880306-65880325 None:intergenic 50.0%
CAAACAATCTCCCTCCCTCC+CGG - chr5.4:65880317-65880336 MS.gene94221:CDS 55.0%
CTGATGCGGCGGAATAGTGA+AGG + chr5.4:65880239-65880258 None:intergenic 55.0%
GGAGGGAGGGAGATTGTTTG+TGG + chr5.4:65880317-65880336 None:intergenic 55.0%
GGGAGGGAGATTGTTTGTGG+TGG + chr5.4:65880314-65880333 None:intergenic 55.0%
GTGTGACGTTCTTGCGGTTC+AGG + chr5.4:65880505-65880524 None:intergenic 55.0%
TGGTGGAGATTCTGATGCGG+CGG + chr5.4:65880250-65880269 None:intergenic 55.0%
! AAACGACGACGCGGTTTTCG+AGG + chr5.4:65880343-65880362 None:intergenic 55.0%
! ACGGTGGTGGTGAATTACGG+TGG + chr5.4:65880106-65880125 None:intergenic 55.0%
! CAATGTAACGGTGACGGCGA+CGG + chr5.4:65880125-65880144 None:intergenic 55.0%
! CTTCCTAGGGTTTTCGTCGG+CGG - chr5.4:65880524-65880543 MS.gene94221:CDS 55.0%
! GCGACGGTGGTGGTGAATTA+CGG + chr5.4:65880109-65880128 None:intergenic 55.0%
! GTGGTGGTGAATTACGGTGG+CGG + chr5.4:65880103-65880122 None:intergenic 55.0%
!! TGTATGTGCGGCGGATTACG+CGG + chr5.4:65880379-65880398 None:intergenic 55.0%
ACTCCGCCGACGAAAACCCT+AGG + chr5.4:65880530-65880549 None:intergenic 60.0%
CGCGGCAGTCGTTGTATGTG+CGG + chr5.4:65880391-65880410 None:intergenic 60.0%
GGAGGATTGATCTGACGGCG+CGG + chr5.4:65880409-65880428 None:intergenic 60.0%
GGCAGTCGTTGTATGTGCGG+CGG + chr5.4:65880388-65880407 None:intergenic 60.0%
GTCGGCGGAGTTTACATCGG+CGG - chr5.4:65880539-65880558 MS.gene94221:CDS 60.0%
TGATAAGGCGCGGAGGAAGG+TGG + chr5.4:65880270-65880289 None:intergenic 60.0%
TTCGGGAGGCTGATAAGGCG+CGG + chr5.4:65880280-65880299 None:intergenic 60.0%
! CGGTGATGACGCGGAAGTTG+CGG + chr5.4:65880430-65880449 None:intergenic 60.0%
! GGTGAATTACGGTGGCGGCT+CGG + chr5.4:65880098-65880117 None:intergenic 60.0%
! GGTGGTTCGGGAGGCTGATA+AGG + chr5.4:65880285-65880304 None:intergenic 60.0%
! TGATGACGCGGAAGTTGCGG+AGG + chr5.4:65880427-65880446 None:intergenic 60.0%
!! TGTTTGTGGTGGTGGAGCGG+TGG + chr5.4:65880303-65880322 None:intergenic 60.0%
!! TTACATCGGCGGCGTTGACG+AGG - chr5.4:65880550-65880569 MS.gene94221:CDS 60.0%
GGCTGATAAGGCGCGGAGGA+AGG + chr5.4:65880273-65880292 None:intergenic 65.0%
TAAGGCGCGGAGGAAGGTGG+TGG + chr5.4:65880267-65880286 None:intergenic 65.0%
! CGCGTTCGTCGGTGATGACG+CGG + chr5.4:65880439-65880458 None:intergenic 65.0%
! TGTAACGGTGACGGCGACGG+TGG + chr5.4:65880122-65880141 None:intergenic 65.0%
!! ACGACGCGGTTTTCGAGGCC+GGG + chr5.4:65880338-65880357 None:intergenic 65.0%
!! ATGTGCGGCGGATTACGCGG+AGG + chr5.4:65880376-65880395 None:intergenic 65.0%
!! GACGACGCGGTTTTCGAGGC+CGG + chr5.4:65880339-65880358 None:intergenic 65.0%
!! GTGGTGGTGGAGCGGTGGTT+CGG + chr5.4:65880298-65880317 None:intergenic 65.0%
!! GTTTTCGAGGCCGGGAGGGA+GGG + chr5.4:65880330-65880349 None:intergenic 65.0%
!! TGGTGGTGGAGCGGTGGTTC+GGG + chr5.4:65880297-65880316 None:intergenic 65.0%
GGGAGGCTGATAAGGCGCGG+AGG + chr5.4:65880277-65880296 None:intergenic 70.0%
! AACGGTGACGGCGACGGTGG+TGG + chr5.4:65880119-65880138 None:intergenic 70.0%
! TGGTGGAGCGGTGGTTCGGG+AGG + chr5.4:65880294-65880313 None:intergenic 70.0%
!! ACGCGGTTTTCGAGGCCGGG+AGG + chr5.4:65880335-65880354 None:intergenic 70.0%
!! CGCGGTTTTCGAGGCCGGGA+GGG + chr5.4:65880334-65880353 None:intergenic 70.0%
!! GGTTTTCGAGGCCGGGAGGG+AGG + chr5.4:65880331-65880350 None:intergenic 70.0%
!! GCGGCGGATTACGCGGAGGC+TGG + chr5.4:65880372-65880391 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 65880068 65880686 65880068 ID=MS.gene94221
chr5.4 mRNA 65880068 65880686 65880068 ID=MS.gene94221.t1;Parent=MS.gene94221
chr5.4 exon 65880068 65880686 65880068 ID=MS.gene94221.t1.exon1;Parent=MS.gene94221.t1
chr5.4 CDS 65880068 65880686 65880068 ID=cds.MS.gene94221.t1;Parent=MS.gene94221.t1
Gene Sequence

>MS.gene94221

ATGTGGCCGCCAAATTGGTTAGCTTCACCGAGCCGCCACCGTAATTCACCACCACCGTCGCCGTCACCGTTACATTGCCGAACTCGCTCTATCAACTTCACTTGTTCTTCCTTCAAAGACATTGAAACTCTAATCCAAGAAAAACCTGAACCAAATTTACCAAAATCTCCTTCACTATTCCGCCGCATCAGAATCTCCACCACCTTCCTCCGCGCCTTATCAGCCTCCCGAACCACCGCTCCACCACCACAAACAATCTCCCTCCCTCCCGGCCTCGAAAACCGCGTCGTCGTTTACTTCACCAGCCTCCGCGTAATCCGCCGCACATACAACGACTGCCGCGCCGTCAGATCAATCCTCCGCAACTTCCGCGTCATCACCGACGAACGCGATGTCTCAATCGACGATCGATTCCGCGACGAACTCAACGAAATCCTGAACCGCAAGAACGTCACACTTCCTAGGGTTTTCGTCGGCGGAGTTTACATCGGCGGCGTTGACGAGGTGAAACAGTTACACGAAAGCGGTGAGCTGAATCGTTTGATCGAACGGTTACCGAAGTCGAATATGAACGGTTGTGATTGCTGTGGAGGGTTCAGATTTGTTGTGTGTGATGAGT
Protein sequence

>MS.gene94221.t1

MWPPNWLASPSRHRNSPPPSPSPLHCRTRSINFTCSSFKDIETLIQEKPEPNLPKSPSLFRRIRISTTFLRALSASRTTAPPPQTISLPPGLENRVVVYFTSLRVIRRTYNDCRAVRSILRNFRVITDERDVSIDDRFRDELNEILNRKNVTLPRVFVGGVYIGGVDEVKQLHESGELNRLIERLPKSNMNGCDCCGGFRFVVCDE