AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene57414

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57414.t1 MTR_8g093500 93.776 241 13 1 1 239 21 261 1.69e-145 407
MS.gene57414.t1 MTR_3g101810 73.958 96 25 0 60 155 139 234 5.66e-47 157
MS.gene57414.t1 MTR_5g017210 64.545 110 39 0 60 169 105 214 1.29e-37 132
MS.gene57414.t1 MTR_8g015450 60.577 104 36 2 58 156 289 392 7.06e-29 113
MS.gene57414.t1 MTR_2g100490 62.105 95 35 1 63 156 260 354 8.20e-27 107
MS.gene57414.t1 MTR_7g069590 67.857 56 18 0 98 153 32 87 1.25e-20 85.5
MS.gene57414.t1 MTR_5g079500 45.455 99 52 2 58 154 182 280 1.79e-19 85.9
MS.gene57414.t1 MTR_1g106460 41.176 102 59 1 56 156 201 302 7.06e-19 84.3
MS.gene57414.t1 MTR_1g018090 66.071 56 19 0 101 156 283 338 7.44e-19 84.7
MS.gene57414.t1 MTR_5g005110 66.071 56 19 0 101 156 233 288 7.72e-19 84.3
MS.gene57414.t1 MTR_1g106470 66.071 56 19 0 101 156 205 260 2.64e-18 82.0
MS.gene57414.t1 MTR_3g103030 60.606 66 25 1 92 156 228 293 6.57e-18 81.6
MS.gene57414.t1 MTR_4g131160 50.667 75 37 0 80 154 184 258 1.64e-15 75.5
MS.gene57414.t1 MTR_4g131160 50.667 75 37 0 80 154 187 261 1.76e-15 75.5
MS.gene57414.t1 MTR_1g106480 54.237 59 27 0 96 154 73 131 9.17e-15 70.1
MS.gene57414.t1 MTR_1g080890 50.000 70 35 0 85 154 186 255 1.73e-13 69.3
MS.gene57414.t1 MTR_2g067000 58.491 53 22 0 103 155 168 220 2.10e-13 68.6
MS.gene57414.t1 MTR_1g060700 59.259 54 22 0 102 155 357 410 2.49e-13 69.3
MS.gene57414.t1 MTR_2g089070 52.632 57 27 0 102 158 146 202 2.90e-13 68.2
MS.gene57414.t1 MTR_4g033295 57.143 56 23 1 102 156 128 183 1.03e-11 62.4
MS.gene57414.t1 MTR_4g033295 59.259 54 21 1 102 154 128 181 2.75e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57414.t1 AT5G09750 81.651 109 13 1 65 166 92 200 1.20e-46 155
MS.gene57414.t1 AT4G00120 82.022 89 16 0 67 155 87 175 2.09e-46 153
MS.gene57414.t1 AT3G21330 52.632 133 56 1 56 188 233 358 7.44e-38 136
MS.gene57414.t1 AT5G67060 75.824 91 22 0 65 155 83 173 4.13e-36 128
MS.gene57414.t1 AT5G67060 75.824 91 22 0 65 155 95 185 6.25e-36 127
MS.gene57414.t1 AT3G50330 74.725 91 23 0 65 155 92 182 1.98e-35 126
MS.gene57414.t1 AT5G01305 64.179 67 24 0 90 156 35 101 3.67e-21 87.4
MS.gene57414.t1 AT2G14760 67.857 56 18 0 101 156 246 301 6.05e-19 84.7
MS.gene57414.t1 AT5G43175 47.500 80 42 0 77 156 117 196 6.50e-19 82.8
MS.gene57414.t1 AT4G33880 67.857 56 18 0 101 156 275 330 6.88e-19 84.7
MS.gene57414.t1 AT1G27740 50.704 71 35 0 86 156 161 231 1.11e-17 80.1
MS.gene57414.t1 AT1G66470 64.815 54 19 0 101 154 204 257 1.31e-17 80.5
MS.gene57414.t1 AT5G37800 52.778 72 26 1 83 154 200 263 1.61e-17 80.5
MS.gene57414.t1 AT4G30980 59.091 66 26 1 90 154 127 192 1.90e-16 77.4
MS.gene57414.t1 AT4G30980 59.091 66 26 1 90 154 175 240 3.90e-16 77.0
MS.gene57414.t1 AT2G24260 62.963 54 20 0 101 154 44 97 4.46e-16 75.5
MS.gene57414.t1 AT2G24260 49.333 75 32 1 86 154 126 200 9.07e-16 75.9
MS.gene57414.t1 AT2G14760 55.072 69 18 1 101 156 246 314 1.43e-15 75.1
MS.gene57414.t1 AT5G58010 52.113 71 33 1 85 154 91 161 5.32e-15 73.2

Find 52 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTATGAATTCTTCTGGAATT+TGG 0.166878 4.3:-8323041 MS.gene57414:CDS
GGTTCACTCAGTGACATATT+AGG 0.250977 4.3:-8322967 MS.gene57414:CDS
TTGTTATTGTCTCCTTCTTC+TGG 0.266342 4.3:-8322550 MS.gene57414:CDS
TGTTCCTGGTGGAACTAAAA+TGG 0.289003 4.3:-8322725 MS.gene57414:CDS
CAAGTTCCTATGAATTCTTC+TGG 0.298023 4.3:-8323048 MS.gene57414:CDS
ATCATGCTGTTGTAGCTATT+TGG 0.316175 4.3:+8323015 None:intergenic
CTTCTTCTGGTTGTGACGTC+TGG 0.336110 4.3:-8322537 MS.gene57414:CDS
GTGGAAGTGAGTAGTAAATT+TGG 0.351622 4.3:+8322505 None:intergenic
ATTCGAACGTTTCTTCGCTT+TGG 0.353088 4.3:+8322826 None:intergenic
TGTCTAGCTGCAACACTTTG+TGG 0.381712 4.3:+8322793 None:intergenic
ATCCTTCAAAGACTTGTTCC+TGG 0.399593 4.3:-8322739 MS.gene57414:CDS
GAAGAACAAGAAGAAGAGTT+AGG 0.401481 4.3:-8322922 MS.gene57414:CDS
AGAAGAGTTAGGAGCTATGA+AGG 0.405429 4.3:-8322911 MS.gene57414:CDS
GTTCACTCAGTGACATATTA+GGG 0.414540 4.3:-8322966 MS.gene57414:CDS
GATCTTGTTGGAGAATAATA+CGG 0.432514 4.3:+8323076 None:intergenic
AGTAGTAAATTTGGTGCAAA+AGG 0.442540 4.3:+8322514 None:intergenic
GTTCTTCTACATCTTCGATT+CGG 0.446833 4.3:+8322938 None:intergenic
TCCGGCGTCAAATTGAATTC+CGG 0.450878 4.3:+8322456 None:intergenic
CAAATTCCAGAAGAATTCAT+AGG 0.451806 4.3:+8323042 None:intergenic
CAGAAGAATTCATAGGAACT+TGG 0.471897 4.3:+8323049 None:intergenic
CACCAGGAACAAGTCTTTGA+AGG 0.481487 4.3:+8322737 None:intergenic
GAACTTGGTGGTGATCTTGT+TGG 0.483925 4.3:+8323064 None:intergenic
CTTCTACATCTTCGATTCGG+TGG 0.493447 4.3:+8322941 None:intergenic
CAAGATTGCAGCTATGCAAC+CGG 0.495861 4.3:-8322878 MS.gene57414:CDS
GCACCACCACCACCTTCATC+AGG 0.499844 4.3:-8322988 MS.gene57414:CDS
GTCCACTGTGGCAGCTGTTG+TGG 0.509617 4.3:+8322486 None:intergenic
CAGACGTCACAACCAGAAGA+AGG 0.532660 4.3:+8322538 None:intergenic
TAGCTACAACAGCATGATCA+TGG 0.539866 4.3:-8323010 MS.gene57414:CDS
ATGCTGTTGTAGCTATTTGG+TGG 0.542016 4.3:+8323018 None:intergenic
GAACCTGATGAAGGTGGTGG+TGG 0.552409 4.3:+8322985 None:intergenic
ATGAACATGTGAATGTCCTC+CGG 0.556908 4.3:+8322438 None:intergenic
GGCGTCAAATTGAATTCCGG+TGG 0.574382 4.3:+8322459 None:intergenic
CAAGAACTTAACATAACGAA+TGG 0.583966 4.3:+8322678 None:intergenic
TCACATGTTCATGCTTGTGA+AGG 0.591006 4.3:-8322427 MS.gene57414:CDS
GCCACAGTGGACTTACCCAC+CGG 0.591865 4.3:-8322475 MS.gene57414:CDS
AAGAATTCATAGGAACTTGG+TGG 0.592411 4.3:+8323052 None:intergenic
ACTCACTAATTACCTCATGA+TGG 0.592814 4.3:+8322389 None:intergenic
GACAATAACAAAGCACTAGG+AGG 0.606861 4.3:+8322562 None:intergenic
GGAGACAATAACAAAGCACT+AGG 0.609214 4.3:+8322559 None:intergenic
GGAATTCAATTTGACGCCGG+AGG 0.622262 4.3:-8322454 MS.gene57414:CDS
CTTCAAAGACTTGTTCCTGG+TGG 0.627271 4.3:-8322736 MS.gene57414:CDS
GTTGCTGGGTCGATATCCAC+CGG 0.629556 4.3:+8322859 None:intergenic
ACCGGAATTCAATTTGACGC+CGG 0.643580 4.3:-8322457 MS.gene57414:CDS
ATCAAGCTTTAACCATCATG+AGG 0.658321 4.3:-8322401 MS.gene57414:CDS
TTAATGCATTGTGATGAAAG+TGG 0.662271 4.3:+8322592 None:intergenic
TCACTGAGTGAACCTGATGA+AGG 0.669394 4.3:+8322976 None:intergenic
GATTGCAGCTATGCAACCGG+TGG 0.671341 4.3:-8322875 MS.gene57414:CDS
GCGTCAAATTGAATTCCGGT+GGG 0.674022 4.3:+8322460 None:intergenic
TTCCACAACAGCTGCCACAG+TGG 0.676021 4.3:-8322488 MS.gene57414:CDS
AGTGAACCTGATGAAGGTGG+TGG 0.679836 4.3:+8322982 None:intergenic
CTGAGTGAACCTGATGAAGG+TGG 0.711599 4.3:+8322979 None:intergenic
TCCGGTGGGTAAGTCCACTG+TGG 0.759981 4.3:+8322474 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CAAATTCCAGAAGAATTCAT+AGG + chr4.3:8322444-8322463 None:intergenic 30.0%
CAAGAACTTAACATAACGAA+TGG + chr4.3:8322808-8322827 None:intergenic 30.0%
GATCTTGTTGGAGAATAATA+CGG + chr4.3:8322410-8322429 None:intergenic 30.0%
TTAATGCATTGTGATGAAAG+TGG + chr4.3:8322894-8322913 None:intergenic 30.0%
!! AGTAGTAAATTTGGTGCAAA+AGG + chr4.3:8322972-8322991 None:intergenic 30.0%
!! CTATGAATTCTTCTGGAATT+TGG - chr4.3:8322442-8322461 MS.gene57414:CDS 30.0%
!!! TGTTGTTGTTGTTGATTTTG+AGG + chr4.3:8322861-8322880 None:intergenic 30.0%
AAGAATTCATAGGAACTTGG+TGG + chr4.3:8322434-8322453 None:intergenic 35.0%
ACTCACTAATTACCTCATGA+TGG + chr4.3:8323097-8323116 None:intergenic 35.0%
ATCATGCTGTTGTAGCTATT+TGG + chr4.3:8322471-8322490 None:intergenic 35.0%
CAAGTTCCTATGAATTCTTC+TGG - chr4.3:8322435-8322454 MS.gene57414:CDS 35.0%
CAGAAGAATTCATAGGAACT+TGG + chr4.3:8322437-8322456 None:intergenic 35.0%
GAAGAACAAGAAGAAGAGTT+AGG - chr4.3:8322561-8322580 MS.gene57414:CDS 35.0%
GTGGAAGTGAGTAGTAAATT+TGG + chr4.3:8322981-8323000 None:intergenic 35.0%
GTTCACTCAGTGACATATTA+GGG - chr4.3:8322517-8322536 MS.gene57414:CDS 35.0%
GTTCTTCTACATCTTCGATT+CGG + chr4.3:8322548-8322567 None:intergenic 35.0%
! ATCAAGCTTTAACCATCATG+AGG - chr4.3:8323082-8323101 MS.gene57414:CDS 35.0%
! TTGTTATTGTCTCCTTCTTC+TGG - chr4.3:8322933-8322952 MS.gene57414:CDS 35.0%
!!! TTGTTGTTGATTTTGAGGAG+TGG + chr4.3:8322856-8322875 None:intergenic 35.0%
AGAAGAGTTAGGAGCTATGA+AGG - chr4.3:8322572-8322591 MS.gene57414:CDS 40.0%
ATGAACATGTGAATGTCCTC+CGG + chr4.3:8323048-8323067 None:intergenic 40.0%
ATGCTGTTGTAGCTATTTGG+TGG + chr4.3:8322468-8322487 None:intergenic 40.0%
ATTCGAACGTTTCTTCGCTT+TGG + chr4.3:8322660-8322679 None:intergenic 40.0%
GGTTCACTCAGTGACATATT+AGG - chr4.3:8322516-8322535 MS.gene57414:CDS 40.0%
TAGCTACAACAGCATGATCA+TGG - chr4.3:8322473-8322492 MS.gene57414:CDS 40.0%
TCACATGTTCATGCTTGTGA+AGG - chr4.3:8323056-8323075 MS.gene57414:CDS 40.0%
TGTTCCTGGTGGAACTAAAA+TGG - chr4.3:8322758-8322777 MS.gene57414:CDS 40.0%
! ATCCTTCAAAGACTTGTTCC+TGG - chr4.3:8322744-8322763 MS.gene57414:CDS 40.0%
! GACAATAACAAAGCACTAGG+AGG + chr4.3:8322924-8322943 None:intergenic 40.0%
! GGAGACAATAACAAAGCACT+AGG + chr4.3:8322927-8322946 None:intergenic 40.0%
!! TTGGTTTTCGAATCGTTGCT+GGG + chr4.3:8322641-8322660 None:intergenic 40.0%
!!! GTATCCATTTTAGTTCCACC+AGG + chr4.3:8322765-8322784 None:intergenic 40.0%
!!! TTTGGTTTTCGAATCGTTGC+TGG + chr4.3:8322642-8322661 None:intergenic 40.0%
ACCGGAATTCAATTTGACGC+CGG - chr4.3:8323026-8323045 MS.gene57414:CDS 45.0%
CAAGATTGCAGCTATGCAAC+CGG - chr4.3:8322605-8322624 MS.gene57414:CDS 45.0%
CACCAGGAACAAGTCTTTGA+AGG + chr4.3:8322749-8322768 None:intergenic 45.0%
GCGTCAAATTGAATTCCGGT+GGG + chr4.3:8323026-8323045 None:intergenic 45.0%
TCACTGAGTGAACCTGATGA+AGG + chr4.3:8322510-8322529 None:intergenic 45.0%
TCCGGCGTCAAATTGAATTC+CGG + chr4.3:8323030-8323049 None:intergenic 45.0%
TGTCTAGCTGCAACACTTTG+TGG + chr4.3:8322693-8322712 None:intergenic 45.0%
! CTTCAAAGACTTGTTCCTGG+TGG - chr4.3:8322747-8322766 MS.gene57414:CDS 45.0%
!! CTTCTACATCTTCGATTCGG+TGG + chr4.3:8322545-8322564 None:intergenic 45.0%
!! GAACTTGGTGGTGATCTTGT+TGG + chr4.3:8322422-8322441 None:intergenic 45.0%
AGTGAACCTGATGAAGGTGG+TGG + chr4.3:8322504-8322523 None:intergenic 50.0%
CAGACGTCACAACCAGAAGA+AGG + chr4.3:8322948-8322967 None:intergenic 50.0%
CTGAGTGAACCTGATGAAGG+TGG + chr4.3:8322507-8322526 None:intergenic 50.0%
GGAATTCAATTTGACGCCGG+AGG - chr4.3:8323029-8323048 MS.gene57414:CDS 50.0%
GGCGTCAAATTGAATTCCGG+TGG + chr4.3:8323027-8323046 None:intergenic 50.0%
! CTTCTTCTGGTTGTGACGTC+TGG - chr4.3:8322946-8322965 MS.gene57414:CDS 50.0%
GATTGCAGCTATGCAACCGG+TGG - chr4.3:8322608-8322627 MS.gene57414:CDS 55.0%
GTTGCTGGGTCGATATCCAC+CGG + chr4.3:8322627-8322646 None:intergenic 55.0%
TTCCACAACAGCTGCCACAG+TGG - chr4.3:8322995-8323014 MS.gene57414:CDS 55.0%
! GAACCTGATGAAGGTGGTGG+TGG + chr4.3:8322501-8322520 None:intergenic 55.0%
GCACCACCACCACCTTCATC+AGG - chr4.3:8322495-8322514 MS.gene57414:CDS 60.0%
GTCCACTGTGGCAGCTGTTG+TGG + chr4.3:8323000-8323019 None:intergenic 60.0%
TCCGGTGGGTAAGTCCACTG+TGG + chr4.3:8323012-8323031 None:intergenic 60.0%
! GCCACAGTGGACTTACCCAC+CGG - chr4.3:8323008-8323027 MS.gene57414:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 8322387 8323118 8322387 ID=MS.gene57414
chr4.3 mRNA 8322387 8323118 8322387 ID=MS.gene57414.t1;Parent=MS.gene57414
chr4.3 exon 8322387 8323118 8322387 ID=MS.gene57414.t1.exon1;Parent=MS.gene57414.t1
chr4.3 CDS 8322387 8323118 8322387 ID=cds.MS.gene57414.t1;Parent=MS.gene57414.t1
Gene Sequence

>MS.gene57414

ATGGAAACAAATGAACAAAACCGTATTATTCTCCAACAAGATCACCACCAAGTTCCTATGAATTCTTCTGGAATTTGGCCACCAAATAGCTACAACAGCATGATCATGGCACCACCACCACCTTCATCAGGTTCACTCAGTGACATATTAGGGATCCACCGAATCGAAGATGTAGAAGAACAAGAAGAAGAGTTAGGAGCTATGAAGGAAATGATGTACAAGATTGCAGCTATGCAACCGGTGGATATCGACCCAGCAACGATTCGAAAACCAAAGCGAAGAAACGTTCGAATCAGCGACGATCCACAAAGTGTTGCAGCTAGACATAGAAGAGAAAGAATCAGTGAGAAGATTCGTATCCTTCAAAGACTTGTTCCTGGTGGAACTAAAATGGATACAGCTTCTATGCTTGATGAAGCCATTCGTTATGTTAAGTTCTTGAAGAGACAAATCAAGTTGCTTCAATCCACTCCTCAAAATCAACAACAACAACACATTCAATTGCCACTTTCATCACAATGCATTAATTCTACTCCTCCTAGTGCTTTGTTATTGTCTCCTTCTTCTGGTTGTGACGTCTGGCCTTTTGCACCAAATTTACTACTCACTTCCACAACAGCTGCCACAGTGGACTTACCCACCGGAATTCAATTTGACGCCGGAGGACATTCACATGTTCATGCTTGTGAAGGCTCATCAAGCTTTAACCATCATGAGGTAATTAGTGAGTGA
Protein sequence

>MS.gene57414.t1

METNEQNRIILQQDHHQVPMNSSGIWPPNSYNSMIMAPPPPSSGSLSDILGIHRIEDVEEQEEELGAMKEMMYKIAAMQPVDIDPATIRKPKRRNVRISDDPQSVAARHRRERISEKIRILQRLVPGGTKMDTASMLDEAIRYVKFLKRQIKLLQSTPQNQQQQHIQLPLSSQCINSTPPSALLLSPSSGCDVWPFAPNLLLTSTTAATVDLPTGIQFDAGGHSHVHACEGSSSFNHHEVISE