AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene065425

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene065425.t1 MTR_7g481630 92.105 114 9 0 1 114 80 193 1.15e-73 217
MS.gene065425.t1 MTR_7g481590 92.105 114 9 0 1 114 203 316 8.04e-72 216
MS.gene065425.t1 MTR_7g081570 92.982 114 8 0 1 114 939 1052 1.17e-67 219
MS.gene065425.t1 MTR_7g081410 89.474 114 12 0 1 114 826 939 5.46e-64 208
MS.gene065425.t1 MTR_7g081410 90.265 113 11 0 1 113 946 1058 1.05e-63 208
MS.gene065425.t1 MTR_7g081480 80.702 114 21 1 1 114 949 1061 8.64e-57 189
MS.gene065425.t1 MTR_7g081780 76.991 113 25 1 1 113 947 1058 2.51e-53 179
MS.gene065425.t1 MTR_7g081720 57.895 114 47 1 1 113 964 1077 5.45e-36 129
MS.gene065425.t1 MTR_5g085700 58.036 112 46 1 2 113 921 1031 1.79e-34 125
MS.gene065425.t1 MTR_1g039080 54.369 103 46 1 1 102 192 294 2.15e-31 112
MS.gene065425.t1 MTR_8g445960 51.515 99 47 1 1 98 63 161 8.18e-31 107
MS.gene065425.t1 MTR_8g044940 51.515 99 47 1 1 98 63 161 8.18e-31 107
MS.gene065425.t1 MTR_1g038890 56.566 99 42 1 1 98 1033 1131 4.34e-30 112
MS.gene065425.t1 MTR_1g039310 54.639 97 43 1 3 98 1051 1147 2.07e-28 108
MS.gene065425.t1 MTR_7g039330 57.609 92 37 1 2 93 1189 1278 5.33e-28 107
MS.gene065425.t1 MTR_7g045510 57.609 92 37 1 2 93 1091 1180 5.74e-28 107
MS.gene065425.t1 MTR_7g045710 54.839 93 37 1 2 94 972 1059 3.13e-27 104
MS.gene065425.t1 MTR_7g007540 49.505 101 46 2 1 100 1 97 2.70e-26 95.1
MS.gene065425.t1 MTR_0400s0030 52.525 99 46 1 1 98 791 889 1.77e-25 99.8
MS.gene065425.t1 MTR_0365s0020 52.525 99 46 1 1 98 791 889 1.77e-25 99.8
MS.gene065425.t1 MTR_1g040615 53.763 93 39 2 1 89 1025 1117 2.19e-25 99.4
MS.gene065425.t1 MTR_1g040615 49.495 99 46 2 1 95 2024 2122 5.51e-24 95.5
MS.gene065425.t1 MTR_7g007560 52.475 101 43 2 1 100 653 749 2.79e-25 99.4
MS.gene065425.t1 MTR_0400s0040 49.495 99 46 1 1 95 1058 1156 3.72e-25 99.0
MS.gene065425.t1 MTR_0365s0030 49.495 99 46 1 1 95 1058 1156 3.72e-25 99.0
MS.gene065425.t1 MTR_1g039240 49.495 99 46 1 1 95 1058 1156 4.94e-25 98.6
MS.gene065425.t1 MTR_1g040545 51.515 99 44 2 1 95 907 1005 5.56e-25 98.2
MS.gene065425.t1 MTR_1g040525 51.546 97 43 2 1 93 767 863 6.18e-25 98.2
MS.gene065425.t1 MTR_1g039220 50.505 99 45 2 1 95 1032 1130 5.43e-24 95.5
MS.gene065425.t1 MTR_7g007630 49.505 101 46 2 1 100 666 762 6.68e-23 92.4
MS.gene065425.t1 MTR_7g009940 51.515 99 43 2 3 100 700 794 8.05e-23 92.0
MS.gene065425.t1 MTR_7g045860 47.917 96 48 1 2 97 984 1077 1.22e-22 91.7
MS.gene065425.t1 MTR_7g010000 50.485 103 42 3 1 100 746 842 1.25e-22 91.7
MS.gene065425.t1 MTR_7g407130 48.515 101 47 2 1 100 696 792 2.07e-22 90.9
MS.gene065425.t1 MTR_7g446160 51.064 94 45 1 1 93 887 980 2.47e-22 90.9
MS.gene065425.t1 MTR_7g050990 49.495 99 46 2 1 95 819 917 2.53e-22 90.9
MS.gene065425.t1 MTR_7g009970 49.515 103 43 3 1 100 669 765 2.93e-22 90.5
MS.gene065425.t1 MTR_7g051040 46.078 102 46 2 1 95 843 942 3.74e-21 87.4
MS.gene065425.t1 MTR_7g407090 48.515 101 47 2 1 100 651 747 1.63e-20 85.5
MS.gene065425.t1 MTR_7g096980 38.053 113 69 1 1 113 1108 1219 1.14e-19 83.2
MS.gene065425.t1 MTR_7g013680 46.602 103 46 3 1 100 619 715 1.82e-19 82.4
MS.gene065425.t1 MTR_7g007620 49.505 101 46 2 1 100 620 716 3.29e-19 82.0
MS.gene065425.t1 MTR_0491s0030 51.087 92 40 2 1 91 704 791 6.43e-19 80.9
MS.gene065425.t1 MTR_8g047230 51.087 92 40 2 1 91 875 962 7.76e-19 80.9
MS.gene065425.t1 MTR_4g037015 44.211 95 49 1 1 95 777 867 8.47e-19 80.9
MS.gene065425.t1 MTR_7g028432 44.211 95 49 1 1 95 853 943 8.60e-19 80.9
MS.gene065425.t1 MTR_4g037720 46.316 95 43 2 1 93 848 936 2.02e-18 79.7
MS.gene065425.t1 MTR_8g047160 51.724 87 37 2 1 86 531 613 3.87e-18 79.0
MS.gene065425.t1 MTR_7g013350 45.192 104 46 3 1 100 295 391 4.91e-18 78.2
MS.gene065425.t1 MTR_8g047210 53.261 92 38 2 1 91 768 855 9.81e-18 77.8
MS.gene065425.t1 MTR_8g047220 53.261 92 38 2 1 91 831 918 1.32e-17 77.4
MS.gene065425.t1 MTR_7g010010 42.718 103 31 3 1 100 616 693 1.06e-15 72.0
MS.gene065425.t1 MTR_7g446190 46.429 84 38 2 1 80 815 895 5.92e-15 69.7
MS.gene065425.t1 MTR_7g022160 35.922 103 61 2 1 100 909 1009 2.13e-13 65.5
MS.gene065425.t1 MTR_7g022050 36.634 101 59 2 1 98 534 632 4.29e-13 64.3
MS.gene065425.t1 MTR_7g007580 42.391 92 48 2 10 100 3 90 7.51e-13 60.5
MS.gene065425.t1 MTR_0007s0390 42.574 101 47 4 2 94 559 656 7.97e-13 63.5
MS.gene065425.t1 MTR_2g070020 36.000 100 53 2 1 93 987 1082 9.37e-13 63.5
MS.gene065425.t1 MTR_8g035560 35.849 106 57 3 2 99 559 661 1.84e-12 62.8
MS.gene065425.t1 MTR_3g093930 34.314 102 62 3 1 99 879 978 4.23e-11 58.9
MS.gene065425.t1 MTR_1g080440 33.000 100 64 1 1 97 888 987 5.05e-11 58.5
MS.gene065425.t1 MTR_2g031530 38.000 100 48 4 2 93 573 666 6.92e-11 58.2
MS.gene065425.t1 MTR_1g047670 35.922 103 51 3 1 93 989 1086 7.41e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene065425.t1 AT4G08850 44.681 94 49 1 1 94 955 1045 1.39e-19 83.2
MS.gene065425.t1 AT1G35710 45.263 95 46 2 1 94 1031 1120 9.83e-17 74.7
MS.gene065425.t1 AT1G17230 37.624 101 52 2 1 94 977 1073 1.55e-13 65.9
MS.gene065425.t1 AT1G17230 37.624 101 52 2 1 94 977 1073 1.61e-13 65.9
MS.gene065425.t1 AT3G28040 34.951 103 62 2 1 100 908 1008 7.96e-13 63.5
MS.gene065425.t1 AT4G25390 37.755 98 51 2 3 93 530 624 7.99e-13 63.5
MS.gene065425.t1 AT5G62710 38.947 95 51 2 3 93 457 548 4.85e-12 61.6
MS.gene065425.t1 AT5G62710 38.947 95 51 2 3 93 491 582 4.92e-12 61.2
MS.gene065425.t1 AT5G56790 34.375 96 57 2 2 93 567 660 4.47e-11 58.5

Find 22 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTTGCTTTGGAAATCATAA+TGG 0.280746 7.3:-26178073 MS.gene065425:CDS
AAGATAACCTCTTCATCAAT+TGG 0.362969 7.3:+26177937 None:intergenic
CTTGCTTTGGAAATCATAAT+GGG 0.363369 7.3:-26178072 MS.gene065425:CDS
AAATGTGATGTATACAGTTT+TGG 0.382117 7.3:-26178099 MS.gene065425:CDS
GGTTATCTTGATTGCAAGGT+TGG 0.406732 7.3:-26177923 MS.gene065425:CDS
TTAGCCATTGGCCTTGTAGA+TGG 0.410019 7.3:+26178012 None:intergenic
GTATCTAAGATGCTTGCAAT+AGG 0.435731 7.3:-26177850 MS.gene065425:CDS
ATCATAATGGGAAAGCATCC+TGG 0.452740 7.3:-26178060 MS.gene065425:CDS
TGCAATAGGAAAATCACCTT+TGG 0.457045 7.3:-26177836 MS.gene065425:CDS
AATAATGAAATGAGATCTCC+AGG 0.486322 7.3:+26178042 None:intergenic
AATAGGAAAATCACCTTTGG+TGG 0.490438 7.3:-26177833 MS.gene065425:CDS
AACAGTATATTATTAGCCAT+TGG 0.504127 7.3:+26178000 None:intergenic
TCCACGTTCTCGACCAAGCA+TGG 0.519590 7.3:-26177878 MS.gene065425:CDS
TTAGATACTTGATCCATGCT+TGG 0.520747 7.3:+26177865 None:intergenic
ATTGGTTTCGTAACATGTTG+AGG 0.526821 7.3:+26177955 None:intergenic
AAGAGGTTATCTTGATTGCA+AGG 0.533682 7.3:-26177927 MS.gene065425:CDS
TACGAAACCAATTGATGAAG+AGG 0.537650 7.3:-26177944 MS.gene065425:CDS
CAACTTCACATGATCAGACT+AGG 0.540408 7.3:-26177805 MS.gene065425:CDS
TGAAGTTGCTTTCCCACCAA+AGG 0.564942 7.3:+26177820 None:intergenic
TCCATGCTTGGTCGAGAACG+TGG 0.573752 7.3:+26177877 None:intergenic
GTCACCATCTACAAGGCCAA+TGG 0.578037 7.3:-26178016 MS.gene065425:CDS
ATAGGAAAATCACCTTTGGT+GGG 0.631051 7.3:-26177832 MS.gene065425:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AACAGTATATTATTAGCCAT+TGG + chr7.3:26177909-26177928 None:intergenic 25.0%
!! AAATGTGATGTATACAGTTT+TGG - chr7.3:26177807-26177826 MS.gene065425:CDS 25.0%
AAGATAACCTCTTCATCAAT+TGG + chr7.3:26177972-26177991 None:intergenic 30.0%
AATAATGAAATGAGATCTCC+AGG + chr7.3:26177867-26177886 None:intergenic 30.0%
!! ACTTGCTTTGGAAATCATAA+TGG - chr7.3:26177833-26177852 MS.gene065425:CDS 30.0%
!! CTTGCTTTGGAAATCATAAT+GGG - chr7.3:26177834-26177853 MS.gene065425:CDS 30.0%
!! TATTTTTGTCACCATCTACA+AGG - chr7.3:26177883-26177902 MS.gene065425:CDS 30.0%
AAGAGGTTATCTTGATTGCA+AGG - chr7.3:26177979-26177998 MS.gene065425:CDS 35.0%
AATAGGAAAATCACCTTTGG+TGG - chr7.3:26178073-26178092 MS.gene065425:CDS 35.0%
ATAGGAAAATCACCTTTGGT+GGG - chr7.3:26178074-26178093 MS.gene065425:CDS 35.0%
TACGAAACCAATTGATGAAG+AGG - chr7.3:26177962-26177981 MS.gene065425:CDS 35.0%
TGCAATAGGAAAATCACCTT+TGG - chr7.3:26178070-26178089 MS.gene065425:CDS 35.0%
TTAGATACTTGATCCATGCT+TGG + chr7.3:26178044-26178063 None:intergenic 35.0%
! ATTGGTTTCGTAACATGTTG+AGG + chr7.3:26177954-26177973 None:intergenic 35.0%
! GTATCTAAGATGCTTGCAAT+AGG - chr7.3:26178056-26178075 MS.gene065425:CDS 35.0%
CAACTTCACATGATCAGACT+AGG - chr7.3:26178101-26178120 MS.gene065425:CDS 40.0%
GGTTATCTTGATTGCAAGGT+TGG - chr7.3:26177983-26178002 MS.gene065425:CDS 40.0%
!! ATCATAATGGGAAAGCATCC+TGG - chr7.3:26177846-26177865 MS.gene065425:CDS 40.0%
!!! CAGTTTTGGAGTACTTGCTT+TGG - chr7.3:26177821-26177840 MS.gene065425:CDS 40.0%
! TGAAGTTGCTTTCCCACCAA+AGG + chr7.3:26178089-26178108 None:intergenic 45.0%
!! TTAGCCATTGGCCTTGTAGA+TGG + chr7.3:26177897-26177916 None:intergenic 45.0%
GTCACCATCTACAAGGCCAA+TGG - chr7.3:26177890-26177909 MS.gene065425:CDS 50.0%
TCCACGTTCTCGACCAAGCA+TGG - chr7.3:26178028-26178047 MS.gene065425:CDS 55.0%
TCCATGCTTGGTCGAGAACG+TGG + chr7.3:26178032-26178051 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 26177792 26178136 26177792 ID=MS.gene065425
chr7.3 mRNA 26177792 26178136 26177792 ID=MS.gene065425.t1;Parent=MS.gene065425
chr7.3 exon 26177792 26178136 26177792 ID=MS.gene065425.t1.exon1;Parent=MS.gene065425.t1
chr7.3 CDS 26177792 26178136 26177792 ID=cds.MS.gene065425.t1;Parent=MS.gene065425.t1
Gene Sequence

>MS.gene065425

ATGGAAGTGAATGAGAAATGTGATGTATACAGTTTTGGAGTACTTGCTTTGGAAATCATAATGGGAAAGCATCCTGGAGATCTCATTTCATTATTTTTGTCACCATCTACAAGGCCAATGGCTAATAATATACTGTTGATAGATGTTTTAGATCAAAGACCTCAACATGTTACGAAACCAATTGATGAAGAGGTTATCTTGATTGCAAGGTTGGCATTTGCTTGCTTGAATCAAAATCCACGTTCTCGACCAAGCATGGATCAAGTATCTAAGATGCTTGCAATAGGAAAATCACCTTTGGTGGGAAAGCAACTTCACATGATCAGACTAGGACAGCTTAACTAA
Protein sequence

>MS.gene065425.t1

MEVNEKCDVYSFGVLALEIIMGKHPGDLISLFLSPSTRPMANNILLIDVLDQRPQHVTKPIDEEVILIARLAFACLNQNPRSRPSMDQVSKMLAIGKSPLVGKQLHMIRLGQLN