AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene37859

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene37859.t1 MTR_5g087370 95.620 137 6 0 19 155 834 970 9.50e-86 271
MS.gene37859.t1 MTR_7g092880 79.412 136 28 0 19 154 800 935 2.74e-71 231
MS.gene37859.t1 MTR_5g087350 75.000 136 34 0 19 154 872 1007 6.08e-66 217
MS.gene37859.t1 MTR_5g087340 72.993 137 37 0 19 155 943 1079 5.98e-63 208
MS.gene37859.t1 MTR_5g087360 56.391 133 57 1 19 151 873 1004 2.13e-44 155
MS.gene37859.t1 MTR_5g087360 54.962 131 59 0 16 146 1363 1493 1.71e-42 150
MS.gene37859.t1 MTR_5g087360 56.391 133 57 1 19 151 673 804 2.18e-44 155
MS.gene37859.t1 MTR_5g087360 54.962 131 59 0 16 146 1163 1293 1.72e-42 150
MS.gene37859.t1 MTR_5g087360 56.391 133 57 1 19 151 873 1004 2.21e-44 155
MS.gene37859.t1 MTR_5g087360 54.962 131 59 0 16 146 1363 1493 1.73e-42 150
MS.gene37859.t1 MTR_1g090520 54.206 107 44 2 19 123 981 1084 1.85e-27 107
MS.gene37859.t1 MTR_2g105680 56.436 101 40 2 19 119 965 1061 7.31e-27 105
MS.gene37859.t1 MTR_2g072520 43.137 102 44 5 30 128 207 297 7.09e-14 67.8
MS.gene37859.t1 MTR_7g083500 34.043 94 54 2 30 123 265 350 9.13e-14 67.8
MS.gene37859.t1 MTR_1g052425 34.783 92 53 2 31 122 554 638 2.16e-13 67.0
MS.gene37859.t1 MTR_8g088410 36.170 94 53 2 30 123 261 347 2.29e-13 66.6
MS.gene37859.t1 MTR_3g105320 36.170 94 53 2 30 123 271 357 3.36e-13 66.2
MS.gene37859.t1 MTR_1g033010 33.981 103 59 3 24 123 750 846 5.66e-13 65.9
MS.gene37859.t1 MTR_7g070200 38.776 98 55 2 26 122 621 714 8.29e-13 65.1
MS.gene37859.t1 MTR_7g098610 37.634 93 51 2 31 123 898 983 1.06e-12 65.1
MS.gene37859.t1 MTR_1g033040 33.010 103 60 3 24 123 758 854 1.18e-12 64.7
MS.gene37859.t1 MTR_1g033000 33.981 103 59 3 24 123 755 851 2.49e-12 63.9
MS.gene37859.t1 MTR_2g041960 36.170 94 53 2 30 123 267 353 2.71e-12 63.5
MS.gene37859.t1 MTR_4g133920 36.458 96 54 2 28 123 218 306 3.97e-12 62.8
MS.gene37859.t1 MTR_1g020060 34.444 90 52 2 28 117 232 314 4.29e-12 62.8
MS.gene37859.t1 MTR_4g115120 35.417 96 51 3 30 123 301 387 1.29e-11 61.6
MS.gene37859.t1 MTR_4g130920 32.000 100 62 2 26 125 749 842 2.19e-11 61.2
MS.gene37859.t1 MTR_4g036575 37.736 106 58 4 19 123 894 992 2.28e-11 61.2
MS.gene37859.t1 MTR_2g095880 31.776 107 65 3 30 136 276 374 3.25e-11 60.5
MS.gene37859.t1 MTR_1g079520 39.623 106 57 4 19 123 941 1040 4.88e-11 60.1
MS.gene37859.t1 MTR_3g090480 40.000 105 56 3 19 122 939 1037 4.94e-11 60.1
MS.gene37859.t1 MTR_4g126970 30.851 94 58 2 30 123 314 400 9.10e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene37859.t1 AT1G73080 47.664 107 47 3 19 120 999 1101 5.51e-22 91.7
MS.gene37859.t1 AT1G17750 44.954 109 52 3 19 123 966 1070 2.43e-18 81.3
MS.gene37859.t1 AT1G25320 39.175 97 53 2 24 120 600 690 2.42e-15 72.4
MS.gene37859.t1 AT1G28440 38.095 105 54 3 19 123 863 956 8.62e-15 70.9
MS.gene37859.t1 AT5G61480 37.736 106 58 3 19 123 896 994 4.77e-14 68.9
MS.gene37859.t1 AT3G19700 35.938 128 64 4 19 137 863 981 9.31e-14 68.2
MS.gene37859.t1 AT5G56460 36.000 100 55 3 24 123 263 353 8.51e-13 65.1
MS.gene37859.t1 AT3G46340 38.144 97 50 4 27 123 766 852 1.07e-12 65.1
MS.gene37859.t1 AT2G26290 40.206 97 47 4 29 123 275 362 1.24e-12 64.7
MS.gene37859.t1 AT1G72540 33.684 95 56 2 29 123 271 358 1.52e-12 64.3
MS.gene37859.t1 AT2G28960 40.426 94 44 4 30 122 756 838 2.78e-12 63.9
MS.gene37859.t1 AT2G28960 40.426 94 44 4 30 122 624 706 3.26e-12 63.5
MS.gene37859.t1 AT2G28970 39.362 94 47 3 30 123 662 745 4.02e-12 63.2
MS.gene37859.t1 AT2G28970 39.362 94 47 3 30 123 627 710 4.62e-12 63.2
MS.gene37859.t1 AT4G28650 36.792 106 60 2 31 136 888 986 5.02e-12 63.2
MS.gene37859.t1 AT1G24650 35.354 99 55 4 24 119 724 816 5.45e-12 62.8
MS.gene37859.t1 AT1G51890 42.553 94 44 3 30 123 752 835 6.22e-12 62.8
MS.gene37859.t1 AT1G51890 42.553 94 44 3 30 123 480 563 6.25e-12 62.8
MS.gene37859.t1 AT1G51890 42.553 94 44 3 30 123 774 857 6.36e-12 62.8
MS.gene37859.t1 AT1G51890 42.553 94 44 3 30 123 688 771 6.92e-12 62.8
MS.gene37859.t1 AT1G51880 38.298 94 48 3 30 123 774 857 1.75e-11 61.6
MS.gene37859.t1 AT1G51880 38.298 94 48 3 30 123 748 831 1.81e-11 61.6
MS.gene37859.t1 AT1G51880 38.298 94 48 3 30 123 766 849 1.81e-11 61.6
MS.gene37859.t1 AT2G28250 35.052 97 56 3 28 123 399 489 3.76e-11 60.5
MS.gene37859.t1 AT2G28250 35.052 97 56 3 28 123 399 489 3.76e-11 60.5
MS.gene37859.t1 AT2G28250 35.052 97 56 3 28 123 399 489 3.76e-11 60.5
MS.gene37859.t1 AT2G28250 35.052 97 56 3 28 123 399 489 3.76e-11 60.5
MS.gene37859.t1 AT2G28250 35.052 97 56 3 28 123 399 489 3.76e-11 60.5
MS.gene37859.t1 AT2G28250 35.052 97 56 3 28 123 399 489 3.76e-11 60.5
MS.gene37859.t1 AT3G23750 33.333 93 56 2 31 123 765 851 4.16e-11 60.5
MS.gene37859.t1 AT2G04300 36.170 94 50 3 30 123 724 807 5.94e-11 60.1
MS.gene37859.t1 AT5G11410 32.673 101 61 2 27 127 146 239 6.33e-11 58.9
MS.gene37859.t1 AT2G04300 36.170 94 50 3 30 123 765 848 6.63e-11 59.7

Find 31 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGAACTAATAATTTCTTTC+TGG 0.144869 5.3:-70201014 None:intergenic
TTGACTAGTGTTATTGAATT+AGG 0.186539 5.3:-70201148 None:intergenic
CCAACTATGAAAGTTGTTAT+AGG 0.295909 5.3:+70201232 MS.gene37859:CDS
CATTATACTTCATCTTAAAC+AGG 0.368187 5.3:-70201270 None:intergenic
CCTATAACAACTTTCATAGT+TGG 0.402245 5.3:-70201232 None:intergenic
AGTCAATGCAGTGCTTTCAT+TGG 0.403190 5.3:+70201174 MS.gene37859:CDS
TATATATCAGACATTCTTCC+CGG 0.407959 5.3:-70200959 None:intergenic
TCTGCCTCATCATTCATAGA+TGG 0.412042 5.3:-70201034 None:intergenic
TTCATAGTTGGCCTCTTTCG+TGG 0.414222 5.3:-70201220 None:intergenic
GGAAATGCACTTACCAGGTA+TGG 0.463170 5.3:-70201127 None:intergenic
GTAGTCGAACTGATGGGAAA+TGG 0.464305 5.3:+70201316 MS.gene37859:CDS
AAGTATAATGAGGTGCAATA+TGG 0.494295 5.3:+70201283 MS.gene37859:CDS
ATCTAACCCAAGTGACTATG+TGG 0.510828 5.3:-70201063 None:intergenic
AATTAGGAAATGCACTTACC+AGG 0.511529 5.3:-70201132 None:intergenic
AATGCATATGATGTAGTGCC+GGG 0.520780 5.3:+70200941 MS.gene37859:CDS
TTGGGTTAGATCTGTAATGA+TGG 0.522933 5.3:+70201075 MS.gene37859:CDS
ATCTATGAATGATGAGGCAG+AGG 0.526712 5.3:+70201036 MS.gene37859:CDS
AGATCTGTAATGATGGAGAC+AGG 0.543942 5.3:+70201082 MS.gene37859:CDS
GAATGCATATGATGTAGTGC+CGG 0.558056 5.3:+70200940 MS.gene37859:CDS
AGGAGACCCACATAGTCACT+TGG 0.567780 5.3:+70201056 MS.gene37859:CDS
GGCATTGCAATGCACAGAGA+AGG 0.571061 5.3:+70201195 MS.gene37859:CDS
CAGAGAAGGATCCACGAAAG+AGG 0.586162 5.3:+70201209 MS.gene37859:CDS
GAACATTGTTGATCCATACC+TGG 0.599883 5.3:+70201114 MS.gene37859:CDS
ATGTCTGATATATATAGCTA+CGG 0.602087 5.3:+70200968 MS.gene37859:CDS
AATGAGGTGCAATATGGTGA+TGG 0.602308 5.3:+70201289 MS.gene37859:CDS
GTTTAAGATGAAGTATAATG+AGG 0.621402 5.3:+70201273 MS.gene37859:CDS
TGGACTTGTAGTCGAACTGA+TGG 0.632764 5.3:+70201309 MS.gene37859:CDS
AGTTCCATCTATGAATGATG+AGG 0.639560 5.3:+70201030 MS.gene37859:CDS
GGAGACCCACATAGTCACTT+GGG 0.641484 5.3:+70201057 MS.gene37859:CDS
GGACTTGTAGTCGAACTGAT+GGG 0.673693 5.3:+70201310 MS.gene37859:CDS
TCTAACCCAAGTGACTATGT+GGG 0.685161 5.3:-70201062 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATGTCTGATATATATAGCTA+CGG + chr5.3:70200968-70200987 MS.gene37859:CDS 25.0%
! CATTATACTTCATCTTAAAC+AGG - chr5.3:70201273-70201292 None:intergenic 25.0%
! TGGAACTAATAATTTCTTTC+TGG - chr5.3:70201017-70201036 None:intergenic 25.0%
!! GTTTAAGATGAAGTATAATG+AGG + chr5.3:70201273-70201292 MS.gene37859:CDS 25.0%
!! TTGACTAGTGTTATTGAATT+AGG - chr5.3:70201151-70201170 None:intergenic 25.0%
AAGTATAATGAGGTGCAATA+TGG + chr5.3:70201283-70201302 MS.gene37859:CDS 30.0%
CCAACTATGAAAGTTGTTAT+AGG + chr5.3:70201232-70201251 MS.gene37859:CDS 30.0%
CCTATAACAACTTTCATAGT+TGG - chr5.3:70201235-70201254 None:intergenic 30.0%
TATATATCAGACATTCTTCC+CGG - chr5.3:70200962-70200981 None:intergenic 30.0%
AATTAGGAAATGCACTTACC+AGG - chr5.3:70201135-70201154 None:intergenic 35.0%
AGTTCCATCTATGAATGATG+AGG + chr5.3:70201030-70201049 MS.gene37859:CDS 35.0%
! TTGGGTTAGATCTGTAATGA+TGG + chr5.3:70201075-70201094 MS.gene37859:CDS 35.0%
AATGAGGTGCAATATGGTGA+TGG + chr5.3:70201289-70201308 MS.gene37859:CDS 40.0%
AATGCATATGATGTAGTGCC+GGG + chr5.3:70200941-70200960 MS.gene37859:CDS 40.0%
AGTCAATGCAGTGCTTTCAT+TGG + chr5.3:70201174-70201193 MS.gene37859:CDS 40.0%
ATCTAACCCAAGTGACTATG+TGG - chr5.3:70201066-70201085 None:intergenic 40.0%
ATCTATGAATGATGAGGCAG+AGG + chr5.3:70201036-70201055 MS.gene37859:CDS 40.0%
GAACATTGTTGATCCATACC+TGG + chr5.3:70201114-70201133 MS.gene37859:CDS 40.0%
GAATGCATATGATGTAGTGC+CGG + chr5.3:70200940-70200959 MS.gene37859:CDS 40.0%
TCTAACCCAAGTGACTATGT+GGG - chr5.3:70201065-70201084 None:intergenic 40.0%
TCTGCCTCATCATTCATAGA+TGG - chr5.3:70201037-70201056 None:intergenic 40.0%
! AGATCTGTAATGATGGAGAC+AGG + chr5.3:70201082-70201101 MS.gene37859:CDS 40.0%
GGAAATGCACTTACCAGGTA+TGG - chr5.3:70201130-70201149 None:intergenic 45.0%
GGACTTGTAGTCGAACTGAT+GGG + chr5.3:70201310-70201329 MS.gene37859:CDS 45.0%
GTAGTCGAACTGATGGGAAA+TGG + chr5.3:70201316-70201335 MS.gene37859:CDS 45.0%
TGGACTTGTAGTCGAACTGA+TGG + chr5.3:70201309-70201328 MS.gene37859:CDS 45.0%
! TTCATAGTTGGCCTCTTTCG+TGG - chr5.3:70201223-70201242 None:intergenic 45.0%
AGGAGACCCACATAGTCACT+TGG + chr5.3:70201056-70201075 MS.gene37859:CDS 50.0%
CAGAGAAGGATCCACGAAAG+AGG + chr5.3:70201209-70201228 MS.gene37859:CDS 50.0%
GGAGACCCACATAGTCACTT+GGG + chr5.3:70201057-70201076 MS.gene37859:CDS 50.0%
GGCATTGCAATGCACAGAGA+AGG + chr5.3:70201195-70201214 MS.gene37859:CDS 50.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 70200884 70201351 70200884 ID=MS.gene37859
chr5.3 mRNA 70200884 70201351 70200884 ID=MS.gene37859.t1;Parent=MS.gene37859
chr5.3 exon 70200884 70201351 70200884 ID=MS.gene37859.t1.exon1;Parent=MS.gene37859.t1
chr5.3 CDS 70200884 70201351 70200884 ID=cds.MS.gene37859.t1;Parent=MS.gene37859.t1
Gene Sequence

>MS.gene37859

ATGGAGTTTTGCAAGATAGTATTTTCTAACATGTTTGCATTGTTATCTGTGACAGAGAATGCATATGATGTAGTGCCGGGAAGAATGTCTGATATATATAGCTACGGAGTTGTTTTGCTCGAGATAATAACCAGAAAGAAATTATTAGTTCCATCTATGAATGATGAGGCAGAGGAGACCCACATAGTCACTTGGGTTAGATCTGTAATGATGGAGACAGGAAAAATTGAGAACATTGTTGATCCATACCTGGTAAGTGCATTTCCTAATTCAATAACACTAGTCAAGCAAGTCAATGCAGTGCTTTCATTGGCATTGCAATGCACAGAGAAGGATCCACGAAAGAGGCCAACTATGAAAGTTGTTATAGGCTTTTATAATAAGAACCTGTTTAAGATGAAGTATAATGAGGTGCAATATGGTGATGGACTTGTAGTCGAACTGATGGGAAATGGTAAGATTCAGTAG
Protein sequence

>MS.gene37859.t1

MEFCKIVFSNMFALLSVTENAYDVVPGRMSDIYSYGVVLLEIITRKKLLVPSMNDEAEETHIVTWVRSVMMETGKIENIVDPYLVSAFPNSITLVKQVNAVLSLALQCTEKDPRKRPTMKVVIGFYNKNLFKMKYNEVQYGDGLVVELMGNGKIQ