AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1341100

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1341100 MtrunA17_Chr1g0191981 97.619 126 3 0 1 126 1 126 1.89e-92 262
Msa1341100 MtrunA17_Chr1g0195851 72.632 95 26 0 4 98 36 130 7.99e-50 157
Msa1341100 MtrunA17_Chr2g0296321 68.687 99 31 0 4 102 66 164 2.54e-46 150
Msa1341100 MtrunA17_Chr4g0067091 72.826 92 25 0 4 95 22 113 2.68e-45 146
Msa1341100 MtrunA17_Chr4g0076321 55.752 113 44 1 6 112 21 133 9.04e-42 134
Msa1341100 MtrunA17_Chr2g0290491 63.043 92 34 0 4 95 17 108 9.72e-40 130
Msa1341100 MtrunA17_Chr3g0102351 60.870 92 36 0 4 95 27 118 5.92e-39 129
Msa1341100 MtrunA17_Chr8g0384451 59.794 97 39 0 4 100 40 136 7.91e-39 129
Msa1341100 MtrunA17_Chr5g0446491 60.870 92 36 0 4 95 23 114 1.95e-38 127
Msa1341100 MtrunA17_Chr7g0263601 45.968 124 67 0 4 127 26 149 3.51e-38 127
Msa1341100 MtrunA17_Chr8g0382931 60.870 92 36 0 4 95 28 119 5.61e-38 127
Msa1341100 MtrunA17_Chr1g0185911 55.435 92 41 0 4 95 29 120 4.03e-36 121
Msa1341100 MtrunA17_Chr4g0076381 51.087 92 45 0 4 95 58 149 2.21e-33 116
Msa1341100 MtrunA17_Chr1g0165041 51.087 92 45 0 4 95 6 97 1.55e-31 110
Msa1341100 MtrunA17_Chr5g0446601 44.330 97 54 0 1 97 21 117 7.21e-23 88.2
Msa1341100 MtrunA17_Chr1g0159291 35.000 80 52 0 9 88 7 86 2.24e-17 71.6
Msa1341100 MtrunA17_Chr2g0307551 35.443 79 51 0 6 84 13 91 3.77e-16 70.1
Msa1341100 MtrunA17_Chr1g0159271 38.462 78 48 0 18 95 1 78 1.09e-15 67.8
Msa1341100 MtrunA17_Chr4g0062271 31.646 79 54 0 6 84 13 91 8.46e-14 63.9
Msa1341100 MtrunA17_Chr1g0158951 42.105 57 33 0 39 95 24 80 1.72e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1341100 AT1G09030.1 63.492 126 41 2 1 122 1 125 6.47e-51 158
Msa1341100 AT2G47810.1 68.421 95 30 0 1 95 48 142 2.07e-45 145
Msa1341100 AT5G47640.1 64.130 92 33 0 4 95 27 118 2.00e-40 133
Msa1341100 AT4G14540.1 60.870 92 36 0 4 95 21 112 2.71e-39 129
Msa1341100 AT2G13570.1 59.000 100 41 0 4 103 36 135 1.17e-38 129
Msa1341100 AT2G38880.3 58.696 92 38 0 4 95 21 112 7.61e-38 125
Msa1341100 AT2G38880.2 58.696 92 38 0 4 95 21 112 9.43e-38 125
Msa1341100 AT2G38880.1 58.696 92 38 0 4 95 21 112 9.43e-38 125
Msa1341100 AT2G38880.5 58.696 92 38 0 4 95 21 112 9.43e-38 125
Msa1341100 AT2G38880.4 58.242 91 38 0 4 94 21 111 1.11e-37 124
Msa1341100 AT2G38880.7 57.609 92 39 0 4 95 21 112 1.38e-37 124
Msa1341100 AT2G37060.2 56.522 92 40 0 4 95 30 121 2.90e-37 125
Msa1341100 AT2G37060.3 56.522 92 40 0 4 95 30 121 2.90e-37 125
Msa1341100 AT2G37060.1 56.522 92 40 0 4 95 30 121 2.90e-37 125
Msa1341100 AT3G53340.4 56.044 91 40 0 4 94 29 119 3.31e-37 123
Msa1341100 AT3G53340.3 55.914 93 41 0 4 96 29 121 3.76e-37 124
Msa1341100 AT3G53340.2 55.914 93 41 0 4 96 29 121 3.76e-37 124
Msa1341100 AT3G53340.5 56.522 92 40 0 4 95 29 120 4.47e-37 124
Msa1341100 AT3G53340.1 56.522 92 40 0 4 95 29 120 4.47e-37 124
Msa1341100 AT2G38880.9 58.242 91 38 0 4 94 21 111 6.04e-37 123
Msa1341100 AT2G38880.10 58.242 91 38 0 4 94 21 111 6.04e-37 123
Msa1341100 AT2G38880.6 58.242 91 38 0 4 94 21 111 6.04e-37 123
Msa1341100 AT2G38880.11 58.242 91 38 0 4 94 21 111 6.24e-37 124
Msa1341100 AT2G38880.8 58.242 91 38 0 4 94 21 111 6.24e-37 124
Msa1341100 AT5G47670.2 51.087 92 45 0 4 95 29 120 1.48e-32 114
Msa1341100 AT5G47670.1 51.087 92 45 0 4 95 58 149 3.66e-32 113
Msa1341100 AT5G47670.3 51.087 92 45 0 4 95 58 149 3.66e-32 113
Msa1341100 AT1G21970.1 49.474 95 48 0 4 98 59 153 3.01e-31 111
Msa1341100 AT5G23090.4 36.709 79 50 0 6 84 13 91 1.57e-16 71.6
Msa1341100 AT5G23090.5 36.709 79 50 0 6 84 13 91 1.73e-16 71.2
Msa1341100 AT5G23090.2 36.709 79 50 0 6 84 13 91 1.73e-16 71.2
Msa1341100 AT5G23090.1 36.709 79 50 0 6 84 13 91 1.73e-16 71.2
Msa1341100 AT5G08190.2 32.911 79 53 0 6 84 13 91 1.30e-14 66.6
Msa1341100 AT5G08190.1 32.911 79 53 0 6 84 13 91 1.38e-14 66.6

Find 21 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGAATCGCAAGACAGTTAA+TGG 0.277173 tig0004726:+2539 Msa1341100:CDS
TGTTGGGCTTTGTGTTCGTT+AGG 0.349672 tig0004726:+2572 Msa1341100:CDS
TGACCACTATGTTTGGTACT+TGG 0.392179 tig0004726:-2722 None:intergenic
GACAACTATGCTGAAGCTAT+TGG 0.407603 tig0004726:+2599 Msa1341100:CDS
TTACAGATGACCACTATGTT+TGG 0.421378 tig0004726:-2729 None:intergenic
AGAATCGCAAGACAGTTAAT+GGG 0.432736 tig0004726:+2540 Msa1341100:CDS
TATTCTACCCACATTTGCTA+TGG 0.454852 tig0004726:-2396 None:intergenic
GTTGGGCTTTGTGTTCGTTA+GGG 0.471790 tig0004726:+2573 Msa1341100:CDS
AACGTTGCCCATAGCAAATG+TGG 0.502850 tig0004726:+2388 Msa1341100:CDS
TAATGGGGATGACATCTGTT+GGG 0.508909 tig0004726:+2556 Msa1341100:CDS
ATTCTACCCACATTTGCTAT+GGG 0.509383 tig0004726:-2395 None:intergenic
GAGTTCATAAGTTTCGTGAC+AGG 0.522754 tig0004726:+2491 Msa1341100:CDS
TTAATGGGGATGACATCTGT+TGG 0.554383 tig0004726:+2555 Msa1341100:CDS
TTTGAGATCTTTGCAGTGGG+AGG 0.587845 tig0004726:-2434 None:intergenic
TAGCTAGAAATGAACGATGA+GGG 0.603562 tig0004726:+2359 None:intergenic
ACTATGCTGAAGCTATTGGA+AGG 0.633037 tig0004726:+2603 Msa1341100:CDS
AGCATCTGACAAGTGTCACA+AGG 0.642405 tig0004726:+2517 Msa1341100:CDS
AATCCAAGTACCAAACATAG+TGG 0.647897 tig0004726:+2719 Msa1341100:CDS
GTAGCTAGAAATGAACGATG+AGG 0.648734 tig0004726:+2358 None:intergenic
ACGTTGCCCATAGCAAATGT+GGG 0.656251 tig0004726:+2389 Msa1341100:CDS
GAATCGCAAGACAGTTAATG+GGG 0.668357 tig0004726:+2541 Msa1341100:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTCTACCCACATTTGCTAT+GGG - tig0004726:2398-2417 None:intergenic 35.0%
! TATTCTACCCACATTTGCTA+TGG - tig0004726:2399-2418 None:intergenic 35.0%
!!! TCTTTTGAGATCTTTGCAGT+GGG - tig0004726:2440-2459 None:intergenic 35.0%
!!! TTCTTTTGAGATCTTTGCAG+TGG - tig0004726:2441-2460 None:intergenic 35.0%
AGAATCGCAAGACAGTTAAT+GGG + tig0004726:2540-2559 Msa1341100:CDS 35.0%
AATCCAAGTACCAAACATAG+TGG + tig0004726:2719-2738 Msa1341100:CDS 35.0%
TTACAGATGACCACTATGTT+TGG - tig0004726:2732-2751 None:intergenic 35.0%
GAGTTCATAAGTTTCGTGAC+AGG + tig0004726:2491-2510 Msa1341100:CDS 40.0%
GAGAATCGCAAGACAGTTAA+TGG + tig0004726:2539-2558 Msa1341100:CDS 40.0%
GAATCGCAAGACAGTTAATG+GGG + tig0004726:2541-2560 Msa1341100:CDS 40.0%
TTAATGGGGATGACATCTGT+TGG + tig0004726:2555-2574 Msa1341100:CDS 40.0%
TAATGGGGATGACATCTGTT+GGG + tig0004726:2556-2575 Msa1341100:CDS 40.0%
GACAACTATGCTGAAGCTAT+TGG + tig0004726:2599-2618 Msa1341100:CDS 40.0%
ACTATGCTGAAGCTATTGGA+AGG + tig0004726:2603-2622 Msa1341100:CDS 40.0%
TGACCACTATGTTTGGTACT+TGG - tig0004726:2725-2744 None:intergenic 40.0%
AACGTTGCCCATAGCAAATG+TGG + tig0004726:2388-2407 Msa1341100:CDS 45.0%
ACGTTGCCCATAGCAAATGT+GGG + tig0004726:2389-2408 Msa1341100:CDS 45.0%
! TTTGAGATCTTTGCAGTGGG+AGG - tig0004726:2437-2456 None:intergenic 45.0%
AGCATCTGACAAGTGTCACA+AGG + tig0004726:2517-2536 Msa1341100:CDS 45.0%
! TGTTGGGCTTTGTGTTCGTT+AGG + tig0004726:2572-2591 Msa1341100:CDS 45.0%
! GTTGGGCTTTGTGTTCGTTA+GGG + tig0004726:2573-2592 Msa1341100:CDS 45.0%
Chromosome Type Strat End Strand Name
tig0004726 gene 2368 2751 2368 ID=Msa1341100;Name=Msa1341100
tig0004726 mRNA 2368 2751 2368 ID=Msa1341100-mRNA-1;Parent=Msa1341100;Name=Msa1341100-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0|-1|0|1|-1|1|1|0|127
tig0004726 exon 2368 2751 2368 ID=Msa1341100-mRNA-1:exon:2982;Parent=Msa1341100-mRNA-1
tig0004726 CDS 2368 2751 2368 ID=Msa1341100-mRNA-1:cds;Parent=Msa1341100-mRNA-1
Gene Sequence

>Msa1341100

ATGAACGATGAGGGAGATAAAACGTTGCCCATAGCAAATGTGGGTAGAATAATGAAGCAAAATCTTCCTCCCACTGCAAAGATCTCAAAAGAAAGCAAACAGTTGATGCAAGAATGTGCGACAGAGTTCATAAGTTTCGTGACAGGTGAAGCATCTGACAAGTGTCACAAGGAGAATCGCAAGACAGTTAATGGGGATGACATCTGTTGGGCTTTGTGTTCGTTAGGGTTTGACAACTATGCTGAAGCTATTGGAAGGTACTTGTATAAATTCAGACAAGCTGAACTTGTTAGAATAAATCAGAACAAACTTCATGAAACTGCAAAAGACAAGTTTGAAGAAGATGCAACAAATCCAAGTACCAAACATAGTGGTCATCTGTAA
Protein sequence

>Msa1341100

MNDEGDKTLPIANVGRIMKQNLPPTAKISKESKQLMQECATEFISFVTGEASDKCHKENRKTVNGDDICWALCSLGFDNYAEAIGRYLYKFRQAELVRINQNKLHETAKDKFEEDATNPSTKHSGHL*