AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene50581


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene50581.t1 MTR_1g070480 88.601 193 22 0 1 193 1 193 5.29e-111 315
MS.gene50581.t1 MTR_7g096220 53.846 182 83 1 11 191 18 199 5.65e-62 191
MS.gene50581.t1 MTR_3g012070 80.000 95 18 1 97 191 34 127 6.05e-36 124
MS.gene50581.t1 MTR_2g100260 46.853 143 70 2 33 170 38 179 4.97e-34 119
MS.gene50581.t1 MTR_1g080760 48.125 160 78 2 35 193 38 193 1.08e-31 114
MS.gene50581.t1 MTR_6g092690 39.024 164 94 2 11 168 11 174 4.24e-31 112
MS.gene50581.t1 MTR_4g014060 38.849 139 83 1 33 169 61 199 2.02e-28 106
MS.gene50581.t1 MTR_0562s0010 38.849 139 83 1 33 169 61 199 2.02e-28 106
MS.gene50581.t1 MTR_5g083490 33.163 196 111 2 6 181 8 203 1.45e-26 101
MS.gene50581.t1 MTR_2g100270 45.614 171 83 2 9 169 3 173 2.77e-25 97.1
MS.gene50581.t1 MTR_8g016150 37.576 165 95 1 7 163 2 166 9.74e-24 92.8
MS.gene50581.t1 MTR_1g093090 45.679 81 42 1 33 111 24 104 6.58e-16 72.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene50581.t1 AT1G04260 40.909 176 104 0 18 193 7 182 8.18e-45 147
MS.gene50581.t1 AT1G55190 51.049 143 70 0 26 168 31 173 2.07e-39 133
MS.gene50581.t1 AT3G13710 41.566 166 83 1 17 168 8 173 5.89e-38 129
MS.gene50581.t1 AT3G13720 49.219 128 65 0 41 168 46 173 7.63e-33 116
MS.gene50581.t1 AT1G08770 40.678 177 101 2 17 191 33 207 1.68e-32 116
MS.gene50581.t1 AT5G01640 38.667 150 90 1 33 180 56 205 2.14e-28 106
MS.gene50581.t1 AT2G40380 42.553 141 79 1 42 180 57 197 2.78e-26 100
MS.gene50581.t1 AT2G38360 34.965 143 91 1 41 181 64 206 2.90e-26 100
MS.gene50581.t1 AT5G56230 34.078 179 109 4 6 177 6 182 5.29e-24 94.0
MS.gene50581.t1 AT1G17700 39.583 144 87 0 26 169 31 174 1.04e-23 92.8
MS.gene50581.t1 AT3G56110 38.095 147 89 1 33 177 46 192 3.75e-23 92.0
MS.gene50581.t1 AT3G56110 38.095 147 89 1 33 177 46 192 3.75e-23 92.0
MS.gene50581.t1 AT3G56110 38.095 147 89 1 33 177 46 192 3.75e-23 92.0
MS.gene50581.t1 AT3G56110 38.095 147 89 1 33 177 46 192 3.75e-23 92.0
MS.gene50581.t1 AT5G07110 35.172 145 92 1 33 175 46 190 1.50e-21 88.2
MS.gene50581.t1 AT5G05380 42.029 138 78 1 42 177 58 195 3.87e-21 87.0
MS.gene50581.t1 AT5G05380 42.029 138 78 1 42 177 101 238 8.40e-21 87.0
MS.gene50581.t1 AT5G05380 42.029 138 78 1 42 177 109 246 8.89e-21 87.0
MS.gene50581.t1 AT5G05380 42.029 138 78 1 42 177 125 262 1.50e-20 87.0
MS.gene50581.t1 AT1G55640 30.147 136 95 0 35 170 42 177 5.32e-16 72.8
MS.gene50581.t1 AT4G29658 32.394 142 92 1 33 170 36 177 6.56e-13 64.7

Find 71 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGAAGAAGAGATCTTTGA+TGG 0.279860 1.2:+54074693 MS.gene50581:CDS
TTGGAAGGTGGGGTGGCTCG+TGG 0.316077 1.2:-54074255 None:intergenic
GTGAGGGAGAGTGAAGGATT+GGG 0.331674 1.2:-54074316 None:intergenic
GGTAGAGGAGGCTGAGGAAG+AGG 0.352812 1.2:-54074419 None:intergenic
GAAGGGAGAGAGTTGTAAGT+TGG 0.355663 1.2:-54074219 None:intergenic
TCCTCGCCGTCTTCGCCGCT+TGG 0.362575 1.2:+54074463 MS.gene50581:CDS
CACGTGGGGTAGTTGGAAGG+TGG 0.378025 1.2:-54074267 None:intergenic
TGAGGGAGAGAGGGTGGTAG+AGG 0.379952 1.2:-54074434 None:intergenic
GGTGATTTACTTTCAGTTGT+TGG 0.381427 1.2:+54074714 MS.gene50581:CDS
GTAAGTTGGAGTGGGATAGA+TGG 0.383602 1.2:-54074205 None:intergenic
GGAAGGTGGGGTGGCTCGTG+GGG 0.389846 1.2:-54074253 None:intergenic
AGTGAGGGAGAGTGAAGGAT+TGG 0.391419 1.2:-54074317 None:intergenic
CACTCGTCTTCACCGGCGTC+TGG 0.418391 1.2:+54074586 MS.gene50581:CDS
GGAGGCTGAGGAAGAGGATG+AGG 0.423523 1.2:-54074413 None:intergenic
GAAGAACCAAGCGGCGAAGA+CGG 0.427174 1.2:-54074469 None:intergenic
GGGGTAGTTGGAAGGTGGGG+TGG 0.431865 1.2:-54074262 None:intergenic
GAGGGTGGTAGAGGAGGCTG+AGG 0.433438 1.2:-54074425 None:intergenic
TGGAAGGTGGGGTGGCTCGT+GGG 0.446589 1.2:-54074254 None:intergenic
TGGGAGGCACGTGGGGTAGT+TGG 0.454379 1.2:-54074274 None:intergenic
GGGAGAGAGGGTGGTAGAGG+AGG 0.457006 1.2:-54074431 None:intergenic
AGGAAGACGATGAGGGAGAG+AGG 0.457920 1.2:-54074444 None:intergenic
TGAGGGAGAGTGAAGGATTG+GGG 0.470927 1.2:-54074315 None:intergenic
CGTGGGGAAGTTGAGTTTGA+AGG 0.471719 1.2:-54074237 None:intergenic
GGCTGAGGAAGAGGATGAGG+AGG 0.474629 1.2:-54074410 None:intergenic
CGTGGGGTAGTTGGAAGGTG+GGG 0.481724 1.2:-54074265 None:intergenic
GTCCTCGTGTCGGTGCTCTT+CGG 0.484352 1.2:+54074615 MS.gene50581:CDS
CACTCTCCCTCACTCCCTCT+CGG 0.500333 1.2:+54074326 MS.gene50581:CDS
GAGAGAGTTGTAAGTTGGAG+TGG 0.502950 1.2:-54074214 None:intergenic
AGTTGATGCGGAAGTGGTTG+AGG 0.503368 1.2:-54074374 None:intergenic
AGACGATGAGGGAGAGAGGG+TGG 0.503783 1.2:-54074440 None:intergenic
GTGGTTTCCGAGAGGGAGTG+AGG 0.506581 1.2:-54074333 None:intergenic
CTTCTTCTTCCGTGACCACC+CGG 0.507928 1.2:+54074494 MS.gene50581:CDS
TGGTTTCCGAGAGGGAGTGA+GGG 0.512955 1.2:-54074332 None:intergenic
AGAGAGTTGTAAGTTGGAGT+GGG 0.514057 1.2:-54074213 None:intergenic
ACGTGGGGTAGTTGGAAGGT+GGG 0.516248 1.2:-54074266 None:intergenic
GAGGATGAGGAGGATGATGA+TGG 0.521356 1.2:-54074400 None:intergenic
AGAGTAGAATGAGGAGGAAG+CGG 0.522523 1.2:-54074545 None:intergenic
AGCGGTTGTCGATGGTGAAA+CGG 0.524582 1.2:-54074527 None:intergenic
GTCGTCGCACTCGTCTTCAC+CGG 0.525854 1.2:+54074579 MS.gene50581:CDS
TCTAGTGTACCTCGTTCGCT+TGG 0.528961 1.2:-54074751 None:intergenic
GTGAAACGGAAGAGGACGAC+CGG 0.538948 1.2:-54074513 None:intergenic
AGGCACGTGGGGTAGTTGGA+AGG 0.547236 1.2:-54074270 None:intergenic
AGAGGACGACCGGGTGGTCA+CGG 0.547677 1.2:-54074503 None:intergenic
GTGGGGAAGTTGAGTTTGAA+GGG 0.558559 1.2:-54074236 None:intergenic
TGTCGATGGTGAAACGGAAG+AGG 0.559389 1.2:-54074521 None:intergenic
ACGGAGGGTGGTTTCCGAGA+GGG 0.561374 1.2:-54074340 None:intergenic
GTCGGTGCTCTTCGGTGCTG+CGG 0.562357 1.2:+54074623 MS.gene50581:CDS
GAGGAGGAAGCGGTTGTCGA+TGG 0.562502 1.2:-54074535 None:intergenic
CTGGCTTAACGTCCTCGTGT+CGG 0.579627 1.2:+54074605 MS.gene50581:CDS
GGTGCTCTTCGGTGCTGCGG+TGG 0.582059 1.2:+54074626 MS.gene50581:CDS
TGGCGTAGTTGATGCGGAAG+TGG 0.582115 1.2:-54074380 None:intergenic
GAGGGAGTGAGGGAGAGTGA+AGG 0.592200 1.2:-54074322 None:intergenic
GGAAGACGATGAGGGAGAGA+GGG 0.595788 1.2:-54074443 None:intergenic
GGGCAGAGAGTAGAATGAGG+AGG 0.599319 1.2:-54074551 None:intergenic
CACCGAAGAGCACCGACACG+AGG 0.603948 1.2:-54074617 None:intergenic
TTTGACATGGGAGGCACGTG+GGG 0.604972 1.2:-54074281 None:intergenic
GGTGGTCACGGAAGAAGAAG+AGG 0.608401 1.2:-54074491 None:intergenic
ACCAAGCGGCGAAGACGGCG+AGG 0.613183 1.2:-54074464 None:intergenic
TGAGGGCAGAGAGTAGAATG+AGG 0.616996 1.2:-54074554 None:intergenic
GACGAGTGCGACGACTGTGA+GGG 0.618599 1.2:-54074571 None:intergenic
GATTTACTTTCAGTTGTTGG+TGG 0.624407 1.2:+54074717 MS.gene50581:CDS
AGACGGCGAGGAAGACGATG+AGG 0.634290 1.2:-54074452 None:intergenic
GACGGCGAGGAAGACGATGA+GGG 0.639915 1.2:-54074451 None:intergenic
TGAAACGGAAGAGGACGACC+GGG 0.651587 1.2:-54074512 None:intergenic
TACGGAGGGTGGTTTCCGAG+AGG 0.666716 1.2:-54074341 None:intergenic
AGACGAGTGCGACGACTGTG+AGG 0.671808 1.2:-54074572 None:intergenic
TGATGATGGCGTAGTTGATG+CGG 0.679858 1.2:-54074386 None:intergenic
GCTTCAATACCAAGCGAACG+AGG 0.681179 1.2:+54074742 MS.gene50581:CDS
GAAGAAGAGGAAGAACCAAG+CGG 0.686040 1.2:-54074478 None:intergenic
GAGGACGTTAAGCCAGACGC+CGG 0.719336 1.2:-54074598 None:intergenic
AACGGAAGAGGACGACCGGG+TGG 0.723292 1.2:-54074509 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GATGAAGAAGAGATCTTTGA+TGG + chr1.2:54074693-54074712 MS.gene50581:CDS 35.0%
GATTTACTTTCAGTTGTTGG+TGG + chr1.2:54074717-54074736 MS.gene50581:CDS 35.0%
GGTGATTTACTTTCAGTTGT+TGG + chr1.2:54074714-54074733 MS.gene50581:CDS 35.0%
!! GAGTGAAGAAGTTTTGACAT+GGG - chr1.2:54074296-54074315 None:intergenic 35.0%
! AGAGAGTTGTAAGTTGGAGT+GGG - chr1.2:54074216-54074235 None:intergenic 40.0%
! GGTTGAGGTTGCGTTTTATA+CGG - chr1.2:54074362-54074381 None:intergenic 40.0%
!! GGAGTGAAGAAGTTTTGACA+TGG - chr1.2:54074297-54074316 None:intergenic 40.0%
!! TGAAGAAGTTTTGACATGGG+AGG - chr1.2:54074293-54074312 None:intergenic 40.0%
AGAGTAGAATGAGGAGGAAG+CGG - chr1.2:54074548-54074567 None:intergenic 45.0%
GAAGAAGAGGAAGAACCAAG+CGG - chr1.2:54074481-54074500 None:intergenic 45.0%
GAAGGGAGAGAGTTGTAAGT+TGG - chr1.2:54074222-54074241 None:intergenic 45.0%
GTGGGGAAGTTGAGTTTGAA+GGG - chr1.2:54074239-54074258 None:intergenic 45.0%
! GAGAGAGTTGTAAGTTGGAG+TGG - chr1.2:54074217-54074236 None:intergenic 45.0%
! GAGGTTGCGTTTTATACGGA+GGG - chr1.2:54074358-54074377 None:intergenic 45.0%
! GTAAGTTGGAGTGGGATAGA+TGG - chr1.2:54074208-54074227 None:intergenic 45.0%
! TGAGGTTGCGTTTTATACGG+AGG - chr1.2:54074359-54074378 None:intergenic 45.0%
!! TGATGATGGCGTAGTTGATG+CGG - chr1.2:54074389-54074408 None:intergenic 45.0%
!! TTGTTTTGCATGCGGCGTTT+CGG + chr1.2:54074649-54074668 MS.gene50581:CDS 45.0%
AGCGGTTGTCGATGGTGAAA+CGG - chr1.2:54074530-54074549 None:intergenic 50.0%
AGTGAGGGAGAGTGAAGGAT+TGG - chr1.2:54074320-54074339 None:intergenic 50.0%
CGTGGGGAAGTTGAGTTTGA+AGG - chr1.2:54074240-54074259 None:intergenic 50.0%
GAGGATGAGGAGGATGATGA+TGG - chr1.2:54074403-54074422 None:intergenic 50.0%
GCTTCAATACCAAGCGAACG+AGG + chr1.2:54074742-54074761 MS.gene50581:CDS 50.0%
GTGAGGGAGAGTGAAGGATT+GGG - chr1.2:54074319-54074338 None:intergenic 50.0%
TCTAGTGTACCTCGTTCGCT+TGG - chr1.2:54074754-54074773 None:intergenic 50.0%
TGAGGGAGAGTGAAGGATTG+GGG - chr1.2:54074318-54074337 None:intergenic 50.0%
TGAGGGCAGAGAGTAGAATG+AGG - chr1.2:54074557-54074576 None:intergenic 50.0%
TGTCGATGGTGAAACGGAAG+AGG - chr1.2:54074524-54074543 None:intergenic 50.0%
! AGTTGATGCGGAAGTGGTTG+AGG - chr1.2:54074377-54074396 None:intergenic 50.0%
! GTTGCGTTTTATACGGAGGG+TGG - chr1.2:54074355-54074374 None:intergenic 50.0%
!! TGCGGTGGTTGTTTTGCATG+CGG + chr1.2:54074641-54074660 MS.gene50581:CDS 50.0%
!! TTTTGACATGGGAGGCACGT+GGG - chr1.2:54074285-54074304 None:intergenic 50.0%
ACGTGGGGTAGTTGGAAGGT+GGG - chr1.2:54074269-54074288 None:intergenic 55.0%
AGGAAGACGATGAGGGAGAG+AGG - chr1.2:54074447-54074466 None:intergenic 55.0%
CTGGCTTAACGTCCTCGTGT+CGG + chr1.2:54074605-54074624 MS.gene50581:CDS 55.0%
CTTCTTCTTCCGTGACCACC+CGG + chr1.2:54074494-54074513 MS.gene50581:CDS 55.0%
GAAGAACCAAGCGGCGAAGA+CGG - chr1.2:54074472-54074491 None:intergenic 55.0%
GGAAGACGATGAGGGAGAGA+GGG - chr1.2:54074446-54074465 None:intergenic 55.0%
GGGCAGAGAGTAGAATGAGG+AGG - chr1.2:54074554-54074573 None:intergenic 55.0%
GGTGGTCACGGAAGAAGAAG+AGG - chr1.2:54074494-54074513 None:intergenic 55.0%
GTGAAACGGAAGAGGACGAC+CGG - chr1.2:54074516-54074535 None:intergenic 55.0%
TGAAACGGAAGAGGACGACC+GGG - chr1.2:54074515-54074534 None:intergenic 55.0%
TGGTTTCCGAGAGGGAGTGA+GGG - chr1.2:54074335-54074354 None:intergenic 55.0%
! TGGCGTAGTTGATGCGGAAG+TGG - chr1.2:54074383-54074402 None:intergenic 55.0%
! TTTGACATGGGAGGCACGTG+GGG - chr1.2:54074284-54074303 None:intergenic 55.0%
!! GTTTTGACATGGGAGGCACG+TGG - chr1.2:54074286-54074305 None:intergenic 55.0%
ACGGAGGGTGGTTTCCGAGA+GGG - chr1.2:54074343-54074362 None:intergenic 60.0%
AGACGAGTGCGACGACTGTG+AGG - chr1.2:54074575-54074594 None:intergenic 60.0%
AGACGATGAGGGAGAGAGGG+TGG - chr1.2:54074443-54074462 None:intergenic 60.0%
AGACGGCGAGGAAGACGATG+AGG - chr1.2:54074455-54074474 None:intergenic 60.0%
AGGCACGTGGGGTAGTTGGA+AGG - chr1.2:54074273-54074292 None:intergenic 60.0%
CACGTGGGGTAGTTGGAAGG+TGG - chr1.2:54074270-54074289 None:intergenic 60.0%
CACTCTCCCTCACTCCCTCT+CGG + chr1.2:54074326-54074345 MS.gene50581:CDS 60.0%
CGTGGGGTAGTTGGAAGGTG+GGG - chr1.2:54074268-54074287 None:intergenic 60.0%
GACGAGTGCGACGACTGTGA+GGG - chr1.2:54074574-54074593 None:intergenic 60.0%
GACGGCGAGGAAGACGATGA+GGG - chr1.2:54074454-54074473 None:intergenic 60.0%
GAGGACGTTAAGCCAGACGC+CGG - chr1.2:54074601-54074620 None:intergenic 60.0%
GAGGAGGAAGCGGTTGTCGA+TGG - chr1.2:54074538-54074557 None:intergenic 60.0%
GAGGGAGTGAGGGAGAGTGA+AGG - chr1.2:54074325-54074344 None:intergenic 60.0%
GGAGGCTGAGGAAGAGGATG+AGG - chr1.2:54074416-54074435 None:intergenic 60.0%
GGCTGAGGAAGAGGATGAGG+AGG - chr1.2:54074413-54074432 None:intergenic 60.0%
GGTAGAGGAGGCTGAGGAAG+AGG - chr1.2:54074422-54074441 None:intergenic 60.0%
GTCGTCGCACTCGTCTTCAC+CGG + chr1.2:54074579-54074598 MS.gene50581:CDS 60.0%
GTGGTTTCCGAGAGGGAGTG+AGG - chr1.2:54074336-54074355 None:intergenic 60.0%
TACGGAGGGTGGTTTCCGAG+AGG - chr1.2:54074344-54074363 None:intergenic 60.0%
TGAGGGAGAGAGGGTGGTAG+AGG - chr1.2:54074437-54074456 None:intergenic 60.0%
! GTCCTCGTGTCGGTGCTCTT+CGG + chr1.2:54074615-54074634 MS.gene50581:CDS 60.0%
AACGGAAGAGGACGACCGGG+TGG - chr1.2:54074512-54074531 None:intergenic 65.0%
AGAGGACGACCGGGTGGTCA+CGG - chr1.2:54074506-54074525 None:intergenic 65.0%
CACTCGTCTTCACCGGCGTC+TGG + chr1.2:54074586-54074605 MS.gene50581:CDS 65.0%
GAGGGTGGTAGAGGAGGCTG+AGG - chr1.2:54074428-54074447 None:intergenic 65.0%
GGGAGAGAGGGTGGTAGAGG+AGG - chr1.2:54074434-54074453 None:intergenic 65.0%
GGGGTAGTTGGAAGGTGGGG+TGG - chr1.2:54074265-54074284 None:intergenic 65.0%
TGGAAGGTGGGGTGGCTCGT+GGG - chr1.2:54074257-54074276 None:intergenic 65.0%
TTGGAAGGTGGGGTGGCTCG+TGG - chr1.2:54074258-54074277 None:intergenic 65.0%
! TGGGAGGCACGTGGGGTAGT+TGG - chr1.2:54074277-54074296 None:intergenic 65.0%
!! CACCGAAGAGCACCGACACG+AGG - chr1.2:54074620-54074639 None:intergenic 65.0%
!! GTCGGTGCTCTTCGGTGCTG+CGG + chr1.2:54074623-54074642 MS.gene50581:CDS 65.0%
ACCAAGCGGCGAAGACGGCG+AGG - chr1.2:54074467-54074486 None:intergenic 70.0%
GGAAGGTGGGGTGGCTCGTG+GGG - chr1.2:54074256-54074275 None:intergenic 70.0%
TCCTCGCCGTCTTCGCCGCT+TGG + chr1.2:54074463-54074482 MS.gene50581:CDS 70.0%
!! GGTGCTCTTCGGTGCTGCGG+TGG + chr1.2:54074626-54074645 MS.gene50581:CDS 70.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 54074198 54074779 54074198 ID=MS.gene50581
chr1.2 mRNA 54074198 54074779 54074198 ID=MS.gene50581.t1;Parent=MS.gene50581
chr1.2 exon 54074198 54074779 54074198 ID=MS.gene50581.t1.exon1;Parent=MS.gene50581.t1
chr1.2 CDS 54074198 54074779 54074198 ID=cds.MS.gene50581.t1;Parent=MS.gene50581.t1
Gene Sequence

>MS.gene50581

ATGTCTTCCATCTATCCCACTCCAACTTACAACTCTCTCCCTTCAAACTCAACTTCCCCACGAGCCACCCCACCTTCCAACTACCCCACGTGCCTCCCATGTCAAAACTTCTTCACTCCCCAATCCTTCACTCTCCCTCACTCCCTCTCGGAAACCACCCTCCGTATAAAACGCAACCTCAACCACTTCCGCATCAACTACGCCATCATCATCCTCCTCATCCTCTTCCTCAGCCTCCTCTACCACCCTCTCTCCCTCATCGTCTTCCTCGCCGTCTTCGCCGCTTGGTTCTTCCTCTTCTTCTTCCGTGACCACCCGGTCGTCCTCTTCCGTTTCACCATCGACAACCGCTTCCTCCTCATTCTACTCTCTGCCCTCACAGTCGTCGCACTCGTCTTCACCGGCGTCTGGCTTAACGTCCTCGTGTCGGTGCTCTTCGGTGCTGCGGTGGTTGTTTTGCATGCGGCGTTTCGGAGTATTGATGATTTGTATTTAGATGAAGAAGAGATCTTTGATGGTGATTTACTTTCAGTTGTTGGTGGTAGCTTCAATACCAAGCGAACGAGGTACACTAGAATGTAG

Protein sequence

>MS.gene50581.t1

MSSIYPTPTYNSLPSNSTSPRATPPSNYPTCLPCQNFFTPQSFTLPHSLSETTLRIKRNLNHFRINYAIIILLILFLSLLYHPLSLIVFLAVFAAWFFLFFFRDHPVVLFRFTIDNRFLLILLSALTVVALVFTGVWLNVLVSVLFGAAVVVLHAAFRSIDDLYLDEEEIFDGDLLSVVGGSFNTKRTRYTRM