AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1047710

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1047710 MtrunA17_Chr7g0215681 91.057 123 11 0 1 123 666 788 2.65e-72 229
Msa1047710 MtrunA17_Chr7g0215651 89.431 123 13 0 1 123 619 741 6.71e-70 222
Msa1047710 MtrunA17_Chr7g0215061 88.618 123 14 0 1 123 707 829 2.46e-69 222
Msa1047710 MtrunA17_Chr7g0215631 88.525 122 14 0 1 122 628 749 1.46e-67 216
Msa1047710 MtrunA17_Chr7g0215641 82.787 122 21 0 1 122 653 774 2.74e-64 207
Msa1047710 MtrunA17_Chr8g0357171 90.244 123 12 0 1 123 831 953 3.48e-62 204
Msa1047710 MtrunA17_Chr8g0357191 89.431 123 13 0 1 123 875 997 1.06e-61 202
Msa1047710 MtrunA17_Chr7g0215671 85.366 123 18 0 1 123 635 757 1.42e-59 195
Msa1047710 MtrunA17_Chr8g0357151 87.805 123 15 0 1 123 959 1081 4.69e-59 195
Msa1047710 MtrunA17_Chr7g0217061 77.869 122 27 0 1 122 669 790 2.04e-58 192
Msa1047710 MtrunA17_Chr7g0215011 83.740 123 20 0 1 123 666 788 4.81e-58 191
Msa1047710 MtrunA17_Chr7g0217081 75.610 123 30 0 1 123 746 868 4.17e-56 186
Msa1047710 MtrunA17_Chr7g0218991 73.984 123 32 0 1 123 642 764 1.18e-53 179
Msa1047710 MtrunA17_Chr7g0218871 65.833 120 41 0 1 120 105 224 1.17e-49 157
Msa1047710 MtrunA17_Chr7g0250431 55.435 92 36 2 1 88 92 182 2.46e-24 92.4
Msa1047710 MtrunA17_Chr7g0217041 40.909 110 65 0 2 111 704 813 9.15e-24 95.1
Msa1047710 MtrunA17_Chr1g0165181 52.809 89 36 3 3 86 194 281 1.06e-23 92.4
Msa1047710 MtrunA17_Chr1g0165191 49.462 93 41 2 1 88 1056 1147 7.14e-23 92.4
Msa1047710 MtrunA17_Chr4g0019041 44.211 95 52 1 1 95 853 946 7.18e-23 92.4
Msa1047710 MtrunA17_Chr7g0250401 55.435 92 36 2 1 88 487 577 8.49e-23 92.0
Msa1047710 MtrunA17_Chr5g0439291 45.536 112 56 2 3 110 922 1032 1.48e-22 91.7
Msa1047710 MtrunA17_Chr4g0019371 45.161 93 50 1 1 93 848 939 1.99e-22 91.3
Msa1047710 MtrunA17_Chr7g0250491 51.579 95 41 2 1 91 964 1057 3.07e-22 90.5
Msa1047710 MtrunA17_Chr1g0165981 45.833 96 44 1 4 91 479 574 5.75e-22 89.7
Msa1047710 MtrunA17_Chr7g0232171 50.000 88 42 2 3 90 997 1082 9.96e-22 89.4
Msa1047710 MtrunA17_Chr7g0250351 43.902 123 57 3 1 119 741 855 1.08e-21 89.0
Msa1047710 MtrunA17_Chr1g0165211 45.455 99 45 2 1 91 1075 1172 2.69e-21 87.8
Msa1047710 MtrunA17_Chr7g0232131 52.222 90 40 3 3 90 1092 1180 3.33e-21 87.8
Msa1047710 MtrunA17_Chr7g0232451 51.546 97 41 3 1 92 906 1001 3.96e-21 87.4
Msa1047710 MtrunA17_Chr1g0165221 47.475 99 43 2 1 91 1032 1129 3.99e-21 87.4
Msa1047710 MtrunA17_Chr7g0231541 52.809 89 39 3 3 89 625 712 4.20e-21 87.4
Msa1047710 MtrunA17_Chr1g0165141 50.538 93 40 3 1 88 1033 1124 6.37e-21 87.0
Msa1047710 MtrunA17_Chr8g0355401 45.455 88 42 2 1 83 63 149 6.64e-21 82.4
Msa1047710 MtrunA17_Chr7g0250381 44.248 113 58 2 1 109 949 1060 2.17e-20 85.5
Msa1047710 MtrunA17_Chr1g0165261 45.455 99 45 2 1 91 497 594 2.94e-20 85.1
Msa1047710 MtrunA17_Chr1g0165951 47.525 101 40 3 1 91 905 1002 3.22e-20 84.7
Msa1047710 MtrunA17_Chr7g0250471 43.860 114 59 2 1 110 947 1059 3.85e-20 84.7
Msa1047710 MtrunA17_Chr7g0232631 51.546 97 41 3 1 92 898 993 4.98e-20 84.3
Msa1047710 MtrunA17_Chr1g0165231 45.455 99 45 2 1 91 1058 1155 1.38e-19 83.2
Msa1047710 MtrunA17_Chr1g0165301 45.455 99 45 2 1 91 1058 1155 1.38e-19 83.2
Msa1047710 MtrunA17_Chr1g0165971 47.525 101 40 3 1 91 960 1057 3.38e-19 82.0
Msa1047710 MtrunA17_Chr7g0232211 45.556 90 46 2 3 90 985 1073 3.56e-19 82.0
Msa1047710 MtrunA17_Chr7g0261331 40.708 113 62 3 1 109 1108 1219 4.48e-19 81.6
Msa1047710 MtrunA17_Chr1g0165891 45.545 101 42 3 1 91 575 672 7.87e-19 80.9
Msa1047710 MtrunA17_Chr1g0165901 44.444 99 46 2 1 91 1143 1240 3.12e-18 79.3
Msa1047710 MtrunA17_Chr7g0216271 76.190 42 10 0 1 42 1 42 1.33e-17 71.2
Msa1047710 MtrunA17_Chr7g0233841 44.792 96 44 3 1 88 216 310 1.25e-16 73.9
Msa1047710 MtrunA17_Chr1g0165281 41.667 96 50 2 1 91 824 918 3.69e-16 73.2
Msa1047710 MtrunA17_Chr1g0165241 41.667 96 50 2 1 91 824 918 3.69e-16 73.2
Msa1047710 MtrunA17_Chr1g0165311 41.667 96 50 2 1 91 824 918 3.69e-16 73.2
Msa1047710 MtrunA17_Chr7g0233881 41.121 107 52 3 1 97 848 953 2.38e-15 70.9
Msa1047710 MtrunA17_Chr7g0232611 42.683 82 41 2 1 77 100 180 1.70e-14 66.2
Msa1047710 MtrunA17_Chr7g0217101 86.667 30 4 0 1 30 501 530 4.16e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1047710 AT4G08850.1 41.758 91 51 2 1 90 955 1044 2.94e-17 76.6
Msa1047710 AT1G35710.1 42.391 92 48 2 1 90 1031 1119 3.07e-17 76.6

Find 14 sgRNAs with CRISPR-Local

Find 16 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTATAACTATGTCATTGTT+TGG 0.359052 7_2:+8778822 None:intergenic
ATAATTCATGTTGCAGTTGT+TGG 0.400004 7_2:-8778795 Msa1047710:CDS
TGTGACACACACTTCATTGT+TGG 0.401225 7_2:+8778738 None:intergenic
AAGTGTGATGTATATAGTTT+TGG 0.441933 7_2:-8778963 Msa1047710:CDS
ACTATGTCATTGTTTGGAAG+TGG 0.482865 7_2:+8778828 None:intergenic
GTGGCACTTGAAACTTTAGT+TGG 0.497856 7_2:-8778936 Msa1047710:CDS
CACTTGAAACTTTAGTTGGA+AGG 0.502085 7_2:-8778932 Msa1047710:CDS
AGTGATGACAATATATCCTC+AGG 0.510472 7_2:+8778906 None:intergenic
TGCACTGAAATTTCACTCAA+AGG 0.510871 7_2:+8778681 None:intergenic
ACTAATGAGTGTAGAACTCA+AGG 0.569852 7_2:-8778655 Msa1047710:CDS
TTCATTGTTGGTCGAGAACG+AGG 0.578335 7_2:+8778750 None:intergenic
GTGATGACAATATATCCTCA+GGG 0.629243 7_2:+8778907 None:intergenic
TGTTTGGAAGTGGAAGACGT+TGG 0.697869 7_2:+8778838 None:intergenic
TTTAGTTGGAAGGCACCCTG+AGG 0.736065 7_2:-8778922 Msa1047710:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGTGTGATGTATATAGTTT+TGG - chr7_2:8778644-8778663 Msa1047710:CDS 25.0%
!!! TGTATATAGTTTTGGTGTAG+TGG - chr7_2:8778652-8778671 Msa1047710:CDS 30.0%
CGTATAACTATGTCATTGTT+TGG + chr7_2:8778788-8778807 None:intergenic 30.0%
ATAATTCATGTTGCAGTTGT+TGG - chr7_2:8778812-8778831 Msa1047710:CDS 30.0%
CACTTGAAACTTTAGTTGGA+AGG - chr7_2:8778675-8778694 Msa1047710:CDS 35.0%
GTGATGACAATATATCCTCA+GGG + chr7_2:8778703-8778722 None:intergenic 35.0%
AGTGATGACAATATATCCTC+AGG + chr7_2:8778704-8778723 None:intergenic 35.0%
ACTATGTCATTGTTTGGAAG+TGG + chr7_2:8778782-8778801 None:intergenic 35.0%
!! TGTGTCACAAAGTTTTGTCA+CGG - chr7_2:8778883-8778902 Msa1047710:CDS 35.0%
TGCACTGAAATTTCACTCAA+AGG + chr7_2:8778929-8778948 None:intergenic 35.0%
ACTAATGAGTGTAGAACTCA+AGG - chr7_2:8778952-8778971 Msa1047710:CDS 35.0%
GTGGCACTTGAAACTTTAGT+TGG - chr7_2:8778671-8778690 Msa1047710:CDS 40.0%
TGTGACACACACTTCATTGT+TGG + chr7_2:8778872-8778891 None:intergenic 40.0%
TGTTTGGAAGTGGAAGACGT+TGG + chr7_2:8778772-8778791 None:intergenic 45.0%
TTCATTGTTGGTCGAGAACG+AGG + chr7_2:8778860-8778879 None:intergenic 45.0%
!! TTTAGTTGGAAGGCACCCTG+AGG - chr7_2:8778685-8778704 Msa1047710:CDS 50.0%
Chromosome Type Strat End Strand Name
chr7_2 gene 8778629 8779000 8778629 ID=Msa1047710;Name=Msa1047710
chr7_2 mRNA 8778629 8779000 8778629 ID=Msa1047710-mRNA-1;Parent=Msa1047710;Name=Msa1047710-mRNA-1;_AED=0.47;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|123
chr7_2 exon 8778629 8779000 8778629 ID=Msa1047710-mRNA-1:exon:2373;Parent=Msa1047710-mRNA-1
chr7_2 CDS 8778629 8779000 8778629 ID=Msa1047710-mRNA-1:cds;Parent=Msa1047710-mRNA-1
Gene Sequence

>Msa1047710

ATGGCTGTGAATGAAAAGTGTGATGTATATAGTTTTGGTGTAGTGGCACTTGAAACTTTAGTTGGAAGGCACCCTGAGGATATATTGTCATCACTTCAATCAACATCGACAAGAAGTGTCAAACTATGTCAAGTTTTAGACCAACGTCTTCCACTTCCAAACAATGACATAGTTATACGTGACATAATTCATGTTGCAGTTGTTGGCTTTGCATGCTTAAATGTCAATCCTCGTTCTCGACCAACAATGAAGTGTGTGTCACAAAGTTTTGTCACGGAGCTTACAACATTAAGCATTCCTTTGAGTGAAATTTCAGTGCAGCAACTAATGAGTGTAGAACTCAAGGCATTGTTTTATATTGCGAACCCTTGA
Protein sequence

>Msa1047710

MAVNEKCDVYSFGVVALETLVGRHPEDILSSLQSTSTRSVKLCQVLDQRLPLPNNDIVIRDIIHVAVVGFACLNVNPRSRPTMKCVSQSFVTELTTLSIPLSEISVQQLMSVELKALFYIANP*