AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene024136

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene024136.t1 MTR_7g481630 79.825 114 23 0 1 114 80 193 9.13e-65 194
MS.gene024136.t1 MTR_7g481590 79.825 114 23 0 1 114 203 316 9.50e-63 193
MS.gene024136.t1 MTR_7g081480 82.456 114 19 1 1 114 949 1061 2.11e-61 202
MS.gene024136.t1 MTR_7g081410 81.579 114 21 0 1 114 946 1059 6.29e-61 201
MS.gene024136.t1 MTR_7g081410 81.579 114 21 0 1 114 826 939 2.32e-60 198
MS.gene024136.t1 MTR_7g081570 79.825 114 23 0 1 114 939 1052 8.32e-60 197
MS.gene024136.t1 MTR_7g081780 76.106 113 26 1 1 113 947 1058 2.02e-55 185
MS.gene024136.t1 MTR_7g081720 56.034 116 48 2 1 114 964 1078 2.02e-36 130
MS.gene024136.t1 MTR_8g445960 52.525 99 46 1 1 98 63 161 1.88e-32 112
MS.gene024136.t1 MTR_8g044940 52.525 99 46 1 1 98 63 161 1.88e-32 112
MS.gene024136.t1 MTR_1g038890 56.566 99 42 1 1 98 1033 1131 7.66e-32 117
MS.gene024136.t1 MTR_1g039080 54.545 99 44 1 1 98 192 290 1.09e-31 113
MS.gene024136.t1 MTR_5g085700 52.679 112 52 1 2 113 921 1031 8.06e-31 115
MS.gene024136.t1 MTR_1g039310 55.670 97 42 1 3 98 1051 1147 4.75e-30 112
MS.gene024136.t1 MTR_7g045510 53.261 92 41 1 2 93 1091 1180 3.24e-28 107
MS.gene024136.t1 MTR_0400s0030 55.556 99 43 1 1 98 791 889 5.28e-28 107
MS.gene024136.t1 MTR_0365s0020 55.556 99 43 1 1 98 791 889 5.28e-28 107
MS.gene024136.t1 MTR_7g039330 53.261 92 41 1 2 93 1189 1278 6.11e-28 106
MS.gene024136.t1 MTR_1g039240 51.546 97 43 1 1 93 1058 1154 1.93e-26 102
MS.gene024136.t1 MTR_0400s0040 54.639 97 40 2 1 93 1058 1154 3.01e-26 102
MS.gene024136.t1 MTR_0365s0030 54.639 97 40 2 1 93 1058 1154 3.01e-26 102
MS.gene024136.t1 MTR_1g040525 49.474 95 44 1 1 91 767 861 6.76e-26 100
MS.gene024136.t1 MTR_1g040545 49.474 95 44 1 1 91 907 1001 1.01e-25 100
MS.gene024136.t1 MTR_7g045710 52.688 93 39 2 2 94 972 1059 1.18e-25 100
MS.gene024136.t1 MTR_1g040615 51.579 95 42 2 1 91 2024 2118 3.39e-25 99.0
MS.gene024136.t1 MTR_1g040615 48.148 108 49 3 1 104 1025 1129 1.20e-24 97.4
MS.gene024136.t1 MTR_1g039220 51.579 95 42 2 1 91 1032 1126 4.43e-25 98.6
MS.gene024136.t1 MTR_7g446160 53.191 94 43 1 1 93 887 980 5.24e-25 98.6
MS.gene024136.t1 MTR_7g007540 48.515 101 47 2 1 100 1 97 1.44e-24 90.5
MS.gene024136.t1 MTR_7g007560 48.515 101 47 2 1 100 653 749 9.03e-24 94.7
MS.gene024136.t1 MTR_7g045860 48.454 97 46 2 2 97 984 1077 2.46e-23 93.6
MS.gene024136.t1 MTR_7g050990 52.577 97 42 2 1 93 819 915 2.71e-23 93.6
MS.gene024136.t1 MTR_7g007630 48.515 101 47 2 1 100 666 762 4.48e-22 90.1
MS.gene024136.t1 MTR_7g051040 46.465 99 48 2 1 94 843 941 5.31e-22 89.7
MS.gene024136.t1 MTR_7g407130 47.525 101 48 2 1 100 696 792 1.33e-21 88.6
MS.gene024136.t1 MTR_7g009970 45.631 103 47 3 1 100 669 765 3.04e-21 87.8
MS.gene024136.t1 MTR_7g009940 44.231 104 47 3 3 102 700 796 4.90e-21 87.0
MS.gene024136.t1 MTR_7g096980 37.607 117 69 2 1 114 1108 1223 4.38e-20 84.3
MS.gene024136.t1 MTR_7g010000 45.631 103 47 3 1 100 746 842 2.54e-19 82.0
MS.gene024136.t1 MTR_7g407090 47.525 101 48 2 1 100 651 747 3.75e-19 81.6
MS.gene024136.t1 MTR_7g007620 48.515 101 47 2 1 100 620 716 5.15e-19 81.3
MS.gene024136.t1 MTR_4g037720 43.011 93 49 1 1 93 848 936 7.43e-19 80.9
MS.gene024136.t1 MTR_4g037015 41.935 93 50 1 1 93 777 865 7.99e-19 80.9
MS.gene024136.t1 MTR_7g028432 41.935 93 50 1 1 93 853 941 9.57e-19 80.5
MS.gene024136.t1 MTR_7g013680 43.689 103 49 3 1 100 619 715 3.49e-18 79.0
MS.gene024136.t1 MTR_8g047160 55.056 89 31 3 1 86 531 613 8.66e-18 77.8
MS.gene024136.t1 MTR_0491s0030 53.191 94 35 3 1 91 704 791 8.68e-18 77.8
MS.gene024136.t1 MTR_8g047230 53.191 94 35 3 1 91 875 962 1.38e-17 77.4
MS.gene024136.t1 MTR_7g013350 42.718 103 50 3 1 100 295 391 4.10e-17 75.9
MS.gene024136.t1 MTR_8g047210 51.087 92 40 2 1 91 768 855 7.84e-17 75.1
MS.gene024136.t1 MTR_8g047220 51.087 92 40 2 1 91 831 918 8.03e-17 75.1
MS.gene024136.t1 MTR_7g446190 45.238 84 39 2 1 80 815 895 7.69e-16 72.4
MS.gene024136.t1 MTR_7g010010 38.835 103 35 3 1 100 616 693 1.63e-13 65.5
MS.gene024136.t1 MTR_2g070020 36.000 100 53 2 1 93 987 1082 8.10e-13 63.5
MS.gene024136.t1 MTR_1g080440 33.000 100 64 1 1 97 888 987 2.82e-12 62.0
MS.gene024136.t1 MTR_1g047670 34.000 100 57 2 1 93 989 1086 2.27e-11 59.7
MS.gene024136.t1 MTR_5g026510 38.542 96 50 3 5 95 484 575 2.80e-11 59.3
MS.gene024136.t1 MTR_7g007580 40.426 94 47 3 10 100 3 90 3.12e-11 56.2
MS.gene024136.t1 MTR_7g022050 33.962 106 65 2 1 103 534 637 4.50e-11 58.5
MS.gene024136.t1 MTR_3g093710 33.333 105 59 3 2 99 517 617 5.90e-11 58.2
MS.gene024136.t1 MTR_2g103950 33.333 108 61 3 2 102 218 321 9.47e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene024136.t1 AT4G08850 47.674 86 42 1 1 86 955 1037 9.43e-19 80.5
MS.gene024136.t1 AT1G35710 46.512 86 42 2 1 86 1031 1112 7.79e-17 75.1
MS.gene024136.t1 AT1G17230 34.615 104 57 2 1 97 977 1076 3.40e-12 62.0
MS.gene024136.t1 AT1G17230 34.615 104 57 2 1 97 977 1076 3.57e-12 62.0
MS.gene024136.t1 AT5G62710 39.583 96 49 3 3 93 457 548 2.08e-11 59.7
MS.gene024136.t1 AT5G62710 40.426 94 47 3 5 93 493 582 2.38e-11 59.3
MS.gene024136.t1 AT2G33170 35.238 105 48 4 1 93 1003 1099 4.60e-11 58.5
MS.gene024136.t1 AT2G33170 35.238 105 48 4 1 93 1003 1099 4.60e-11 58.5

Find 20 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAATGTGATGTATACAGTTT+TGG 0.382117 7.1:-23373655 MS.gene024136:CDS
AAGATCACCTCCTCATCAAT+TGG 0.417895 7.1:+23373493 None:intergenic
TGGATCAGGAAAATCACCTT+TGG 0.463808 7.1:-23373392 MS.gene024136:CDS
TTAGCCACTGGCATTGTAGA+TGG 0.467576 7.1:+23373568 None:intergenic
GTATGTAAGATGCTTGGATC+AGG 0.473427 7.1:-23373406 MS.gene024136:CDS
ATCAGGAAAATCACCTTTGG+TGG 0.476814 7.1:-23373389 MS.gene024136:CDS
AATAATGAAATGAGGTCTCC+AGG 0.502410 7.1:+23373598 None:intergenic
GATCAAGTATGTAAGATGCT+TGG 0.514611 7.1:-23373412 MS.gene024136:CDS
AGGAGGTGATCTTGATTACA+AGG 0.518997 7.1:-23373483 MS.gene024136:CDS
ATTGGTTTCATAACATGTTG+AGG 0.526760 7.1:+23373511 None:intergenic
CATCTTACATACTTGATCCA+TGG 0.528171 7.1:+23373417 None:intergenic
CAAGTTCACATGATCAGACT+AGG 0.543301 7.1:-23373361 MS.gene024136:CDS
TTACATACTTGATCCATGGT+TGG 0.555375 7.1:+23373421 None:intergenic
TCCATGGTTGGACGAGAACG+TGG 0.589321 7.1:+23373433 None:intergenic
TCCACGTTCTCGTCCAACCA+TGG 0.591377 7.1:-23373434 MS.gene024136:CDS
GTCACCATCTACAATGCCAG+TGG 0.625994 7.1:-23373572 MS.gene024136:CDS
AACAACATATCATTAGCCAC+TGG 0.627048 7.1:+23373556 None:intergenic
TGTTATGAAACCAATTGATG+AGG 0.646181 7.1:-23373503 MS.gene024136:CDS
TATGAAACCAATTGATGAGG+AGG 0.680540 7.1:-23373500 MS.gene024136:CDS
GGAGGTGATCTTGATTACAA+GGG 0.716455 7.1:-23373482 MS.gene024136:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GTGACAAAAATAATGAAATG+AGG + chr7.1:23373431-23373450 None:intergenic 25.0%
!! AAATGTGATGTATACAGTTT+TGG - chr7.1:23373363-23373382 MS.gene024136:CDS 25.0%
TGTTATGAAACCAATTGATG+AGG - chr7.1:23373515-23373534 MS.gene024136:CDS 30.0%
! ATTGGTTTCATAACATGTTG+AGG + chr7.1:23373510-23373529 None:intergenic 30.0%
!! GTTTTAATAGGAAAACATCC+TGG - chr7.1:23373402-23373421 MS.gene024136:CDS 30.0%
!!! CTTGCTTTGGAAGTTTTAAT+AGG - chr7.1:23373390-23373409 MS.gene024136:CDS 30.0%
AACAACATATCATTAGCCAC+TGG + chr7.1:23373465-23373484 None:intergenic 35.0%
AATAATGAAATGAGGTCTCC+AGG + chr7.1:23373423-23373442 None:intergenic 35.0%
CATCTTACATACTTGATCCA+TGG + chr7.1:23373604-23373623 None:intergenic 35.0%
GATCAAGTATGTAAGATGCT+TGG - chr7.1:23373606-23373625 MS.gene024136:CDS 35.0%
TATGAAACCAATTGATGAGG+AGG - chr7.1:23373518-23373537 MS.gene024136:CDS 35.0%
TTACATACTTGATCCATGGT+TGG + chr7.1:23373600-23373619 None:intergenic 35.0%
AAGATCACCTCCTCATCAAT+TGG + chr7.1:23373528-23373547 None:intergenic 40.0%
AGGAGGTGATCTTGATTACA+AGG - chr7.1:23373535-23373554 MS.gene024136:CDS 40.0%
ATCAGGAAAATCACCTTTGG+TGG - chr7.1:23373629-23373648 MS.gene024136:CDS 40.0%
CAAGTTCACATGATCAGACT+AGG - chr7.1:23373657-23373676 MS.gene024136:CDS 40.0%
GGAGGTGATCTTGATTACAA+GGG - chr7.1:23373536-23373555 MS.gene024136:CDS 40.0%
GTATGTAAGATGCTTGGATC+AGG - chr7.1:23373612-23373631 MS.gene024136:CDS 40.0%
TGGATCAGGAAAATCACCTT+TGG - chr7.1:23373626-23373645 MS.gene024136:CDS 40.0%
!! TGAACTTGCTTTTCCACCAA+AGG + chr7.1:23373645-23373664 None:intergenic 40.0%
TTAGCCACTGGCATTGTAGA+TGG + chr7.1:23373453-23373472 None:intergenic 45.0%
!!! CAGTTTTGGAGTGCTTGCTT+TGG - chr7.1:23373377-23373396 MS.gene024136:CDS 45.0%
GTCACCATCTACAATGCCAG+TGG - chr7.1:23373446-23373465 MS.gene024136:CDS 50.0%
TCCACGTTCTCGTCCAACCA+TGG - chr7.1:23373584-23373603 MS.gene024136:CDS 55.0%
TCCATGGTTGGACGAGAACG+TGG + chr7.1:23373588-23373607 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 23373348 23373692 23373348 ID=MS.gene024136
chr7.1 mRNA 23373348 23373692 23373348 ID=MS.gene024136.t1;Parent=MS.gene024136
chr7.1 exon 23373348 23373692 23373348 ID=MS.gene024136.t1.exon1;Parent=MS.gene024136.t1
chr7.1 CDS 23373348 23373692 23373348 ID=cds.MS.gene024136.t1;Parent=MS.gene024136.t1
Gene Sequence

>MS.gene024136

ATGGAAGTGAATGAGAAATGTGATGTATACAGTTTTGGAGTGCTTGCTTTGGAAGTTTTAATAGGAAAACATCCTGGAGACCTCATTTCATTATTTTTGTCACCATCTACAATGCCAGTGGCTAATGATATGTTGTTGACAGATGTTTTAGATCAAAGACCTCAACATGTTATGAAACCAATTGATGAGGAGGTGATCTTGATTACAAGGGTCGCATTTTCTTGCATGAGTCAAAATCCACGTTCTCGTCCAACCATGGATCAAGTATGTAAGATGCTTGGATCAGGAAAATCACCTTTGGTGGAAAAGCAAGTTCACATGATCAGACTAGGACAATTTCACTAA
Protein sequence

>MS.gene024136.t1

MEVNEKCDVYSFGVLALEVLIGKHPGDLISLFLSPSTMPVANDMLLTDVLDQRPQHVMKPIDEEVILITRVAFSCMSQNPRSRPTMDQVCKMLGSGKSPLVEKQVHMIRLGQFH