AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0179890

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0179890 MtrunA17_Chr1g0205811 90.984 122 11 0 1 122 1 122 3.51e-77 223
Msa0179890 MtrunA17_Chr1g0205801 68.317 101 30 1 1 101 1 99 3.46e-46 145
Msa0179890 MtrunA17_Chr1g0205821 67.500 80 26 0 14 93 13 92 6.71e-32 110
Msa0179890 MtrunA17_Chr1g0205821 57.692 78 33 0 12 89 97 174 2.12e-26 97.1
Msa0179890 MtrunA17_Chr1g0205831 54.206 107 45 2 17 122 76 179 7.78e-29 103
Msa0179890 MtrunA17_Chr1g0205831 60.000 70 28 0 14 83 2 71 1.72e-24 92.0
Msa0179890 MtrunA17_Chr5g0415031 54.545 88 40 0 4 91 33 120 7.63e-25 98.2
Msa0179890 MtrunA17_Chr8g0364231 50.526 95 46 1 9 102 37 131 8.52e-23 92.0
Msa0179890 MtrunA17_Chr3g0077881 50.515 97 42 2 9 99 3 99 8.08e-21 82.4
Msa0179890 MtrunA17_Chr1g0206781 50.649 77 38 0 15 91 12 88 1.51e-20 80.1
Msa0179890 MtrunA17_Chr6g0452001 50.617 81 40 0 9 89 58 138 2.19e-20 85.5
Msa0179890 MtrunA17_Chr3g0077891 51.546 97 41 2 9 99 3 99 7.37e-20 80.1
Msa0179890 MtrunA17_Chr3g0077891 48.052 77 39 1 14 89 99 175 4.11e-14 65.1
Msa0179890 MtrunA17_Chr6g0452021 46.154 91 48 1 9 99 38 127 2.31e-19 82.0
Msa0179890 MtrunA17_Chr3g0077911 49.425 87 41 1 13 99 7 90 5.19e-19 77.4
Msa0179890 MtrunA17_Chr3g0077911 54.930 71 31 1 14 83 90 160 8.87e-16 68.9
Msa0179890 MtrunA17_Chr4g0075971 55.714 70 31 0 17 86 175 244 1.45e-17 77.0
Msa0179890 MtrunA17_Chr4g0075971 41.935 93 54 0 7 99 82 174 1.25e-15 71.6
Msa0179890 MtrunA17_Chr4g0075971 43.421 76 40 1 14 89 12 84 8.00e-11 57.8
Msa0179890 MtrunA17_Chr1g0205861 52.174 69 33 0 14 82 16 84 1.83e-17 72.4
Msa0179890 MtrunA17_Chr3g0077941 50.000 78 38 1 9 85 3 80 8.91e-17 72.0
Msa0179890 MtrunA17_Chr3g0077941 41.975 81 46 1 10 89 94 174 3.69e-11 57.4
Msa0179890 MtrunA17_Chr4g0075861 43.956 91 51 0 9 99 84 174 9.70e-17 74.7
Msa0179890 MtrunA17_Chr4g0075861 55.714 70 31 0 17 86 175 244 1.13e-16 74.3
Msa0179890 MtrunA17_Chr1g0206771 51.389 72 35 0 15 86 17 88 1.29e-16 71.6
Msa0179890 MtrunA17_Chr1g0206771 50.725 69 34 0 14 82 95 163 1.19e-14 66.6
Msa0179890 MtrunA17_Chr3g0077861 47.126 87 43 1 13 99 7 90 4.31e-16 70.1
Msa0179890 MtrunA17_Chr3g0077861 53.521 71 32 1 14 83 90 160 4.89e-15 67.4
Msa0179890 MtrunA17_Chr3g0077811 46.835 79 41 1 7 85 8 85 8.29e-16 68.2
Msa0179890 MtrunA17_Chr8g0364021 41.053 95 54 1 1 95 31 123 1.52e-15 70.1
Msa0179890 MtrunA17_Chr7g0256011 47.826 69 36 0 14 82 16 84 5.86e-15 65.9
Msa0179890 MtrunA17_Chr7g0218891 40.964 83 45 2 4 84 5 85 1.97e-13 64.7
Msa0179890 MtrunA17_Chr7g0218891 41.429 70 41 0 20 89 193 262 2.14e-12 62.0
Msa0179890 MtrunA17_Chr7g0218911 49.206 63 32 0 22 84 6 68 6.57e-13 60.8
Msa0179890 MtrunA17_Chr2g0328701 40.909 88 46 2 5 89 17 101 2.79e-12 59.3
Msa0179890 MtrunA17_Chr1g0209201 44.872 78 34 2 22 99 24 92 7.94e-11 55.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0179890 AT3G01320.2 48.980 98 50 0 5 102 48 145 1.83e-22 91.7
Msa0179890 AT3G01320.1 48.980 98 50 0 5 102 48 145 1.87e-22 91.7
Msa0179890 AT1G70060.2 55.556 81 36 0 9 89 9 89 3.82e-21 87.8
Msa0179890 AT1G70060.1 55.556 81 36 0 9 89 9 89 3.82e-21 87.8
Msa0179890 AT1G24190.3 53.086 81 38 0 9 89 9 89 2.19e-20 85.9
Msa0179890 AT1G24190.2 53.086 81 38 0 9 89 9 89 2.32e-20 85.5
Msa0179890 AT1G24190.1 53.086 81 38 0 9 89 9 89 2.32e-20 85.5
Msa0179890 AT5G15020.1 52.000 75 36 0 9 83 47 121 2.36e-18 80.1
Msa0179890 AT5G15020.2 52.000 75 36 0 9 83 47 121 2.50e-18 79.7
Msa0179890 AT5G15025.1 48.571 70 36 0 14 83 47 116 6.39e-17 71.2
Msa0179890 AT1G10450.3 42.268 97 55 1 3 99 73 168 2.35e-16 74.3
Msa0179890 AT1G59890.2 46.753 77 41 0 13 89 44 120 2.44e-16 74.3
Msa0179890 AT1G59890.3 46.753 77 41 0 13 89 44 120 2.51e-16 73.9
Msa0179890 AT1G10450.2 45.349 86 46 1 14 99 33 117 2.58e-16 73.9
Msa0179890 AT1G10450.1 45.349 86 46 1 14 99 33 117 2.58e-16 73.9
Msa0179890 AT1G59890.4 46.753 77 41 0 13 89 44 120 2.66e-16 73.9
Msa0179890 AT1G59890.1 46.753 77 41 0 13 89 44 120 2.71e-16 73.9
Msa0179890 AT1G70030.3 45.455 77 42 0 7 83 15 91 2.25e-15 67.4
Msa0179890 AT1G70030.1 37.097 124 65 2 7 118 4 126 6.26e-15 67.4
Msa0179890 AT1G70030.2 45.455 77 42 0 7 83 15 91 7.89e-15 66.6
Msa0179890 AT5G15040.1 47.368 76 38 1 13 88 2 75 2.11e-14 63.9
Msa0179890 AT5G15040.3 47.368 76 38 1 13 88 2 75 2.11e-14 63.9
Msa0179890 AT5G15040.2 47.368 76 38 1 13 88 2 75 2.11e-14 63.9
Msa0179890 AT5G35610.1 41.053 95 53 1 8 102 4 95 3.50e-14 65.1
Msa0179890 AT1G24200.1 46.377 69 37 0 14 82 14 82 1.22e-13 64.7
Msa0179890 AT1G27220.1 43.478 69 39 0 14 82 14 82 1.07e-12 62.0
Msa0179890 AT1G23810.1 37.931 87 53 1 14 100 109 194 2.11e-11 59.3
Msa0179890 AT1G24250.1 39.080 87 52 1 14 100 120 205 3.95e-11 58.5
Msa0179890 AT1G24210.1 37.662 77 48 0 1 77 1 77 5.72e-11 56.6

Find 18 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCTTCTGTATCAATTCTT+TGG 0.194353 1_4:-67596409 None:intergenic
TGCTTCAGCTTCACCAATCT+TGG 0.305827 1_4:-67596297 None:intergenic
AGCTTCTGTATCAATTCTTT+GGG 0.320273 1_4:-67596408 None:intergenic
AGAACTTCTGAAAGATTTCA+AGG 0.358653 1_4:+67596385 Msa0179890:CDS
ACCAATCTTGGCATTTACTC+TGG 0.415002 1_4:-67596285 None:intergenic
AGCTGTGAAAGAAGGAGTTA+TGG 0.477622 1_4:+67596427 Msa0179890:CDS
TCCAGAGTAAATGCCAAGAT+TGG 0.492118 1_4:+67596284 Msa0179890:CDS
ACATGAAATCTCACTTCCAT+TGG 0.500530 1_4:+67596508 Msa0179890:CDS
TGAACTTCAAAGTGAGGGAT+TGG 0.509941 1_4:+67596586 Msa0179890:CDS
GATACAGAAGCTGTGAAAGA+AGG 0.535981 1_4:+67596419 Msa0179890:CDS
TTCAACATCTTCATGCCACC+AGG 0.561140 1_4:+67596485 Msa0179890:CDS
GATGATCAACAACAAGGTGA+TGG 0.565922 1_4:+67596533 Msa0179890:CDS
TGTTGTTGATCATCATCCAA+TGG 0.574340 1_4:-67596524 None:intergenic
TGATGATGAACTTCAAAGTG+AGG 0.591463 1_4:+67596580 Msa0179890:CDS
GGAAGTGAGATTTCATGTCC+TGG 0.614261 1_4:-67596503 None:intergenic
GATGATGAACTTCAAAGTGA+GGG 0.633332 1_4:+67596581 Msa0179890:CDS
TTGGATGATGATCAACAACA+AGG 0.710928 1_4:+67596527 Msa0179890:CDS
AGTGAGATTTCATGTCCTGG+TGG 0.738423 1_4:-67596500 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGAACTTCTGAAAGATTTCA+AGG + chr1_4:67596385-67596404 Msa0179890:CDS 30.0%
AGCTTCTGTATCAATTCTTT+GGG - chr1_4:67596411-67596430 None:intergenic 30.0%
CAGCTTCTGTATCAATTCTT+TGG - chr1_4:67596412-67596431 None:intergenic 35.0%
ACATGAAATCTCACTTCCAT+TGG + chr1_4:67596508-67596527 Msa0179890:CDS 35.0%
TGTTGTTGATCATCATCCAA+TGG - chr1_4:67596527-67596546 None:intergenic 35.0%
TTGGATGATGATCAACAACA+AGG + chr1_4:67596527-67596546 Msa0179890:CDS 35.0%
! TGATGATGAACTTCAAAGTG+AGG + chr1_4:67596580-67596599 Msa0179890:CDS 35.0%
GATGATGAACTTCAAAGTGA+GGG + chr1_4:67596581-67596600 Msa0179890:CDS 35.0%
TCCAGAGTAAATGCCAAGAT+TGG + chr1_4:67596284-67596303 Msa0179890:CDS 40.0%
ACCAATCTTGGCATTTACTC+TGG - chr1_4:67596288-67596307 None:intergenic 40.0%
GATACAGAAGCTGTGAAAGA+AGG + chr1_4:67596419-67596438 Msa0179890:CDS 40.0%
AGCTGTGAAAGAAGGAGTTA+TGG + chr1_4:67596427-67596446 Msa0179890:CDS 40.0%
GATGATCAACAACAAGGTGA+TGG + chr1_4:67596533-67596552 Msa0179890:CDS 40.0%
TGAACTTCAAAGTGAGGGAT+TGG + chr1_4:67596586-67596605 Msa0179890:CDS 40.0%
TGCTTCAGCTTCACCAATCT+TGG - chr1_4:67596300-67596319 None:intergenic 45.0%
TTCAACATCTTCATGCCACC+AGG + chr1_4:67596485-67596504 Msa0179890:CDS 45.0%
AGTGAGATTTCATGTCCTGG+TGG - chr1_4:67596503-67596522 None:intergenic 45.0%
GGAAGTGAGATTTCATGTCC+TGG - chr1_4:67596506-67596525 None:intergenic 45.0%
Chromosome Type Strat End Strand Name
chr1_4 gene 67596275 67596643 67596275 ID=Msa0179890;Name=Msa0179890
chr1_4 mRNA 67596275 67596643 67596275 ID=Msa0179890-mRNA-1;Parent=Msa0179890;Name=Msa0179890-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|122
chr1_4 exon 67596275 67596643 67596275 ID=Msa0179890-mRNA-1:exon:22281;Parent=Msa0179890-mRNA-1
chr1_4 CDS 67596275 67596643 67596275 ID=Msa0179890-mRNA-1:cds;Parent=Msa0179890-mRNA-1
Gene Sequence

>Msa0179890

ATGAGAAGATCCAGAGTAAATGCCAAGATTGGTGAAGCTGAAGCACTTGCGTTTATAATGAAAGTGAAATATGCGTTTCAAGATAAGAGAGAAAAGTATGAAGAATTTTTAGAACTTCTGAAAGATTTCAAGGCCCAAAGAATTGATACAGAAGCTGTGAAAGAAGGAGTTATGGAGTTGTTTAAAGAACATCAATATTTGATTTCAAGATTCAACATCTTCATGCCACCAGGACATGAAATCTCACTTCCATTGGATGATGATCAACAACAAGGTGATGGATTAGAGTTCAAAGATGAACAGAATGATGATGAACTTCAAAGTGAGGGATTGGCACTCAAAGATGAGCAGAAAAATGATGAAGAATAA
Protein sequence

>Msa0179890

MRRSRVNAKIGEAEALAFIMKVKYAFQDKREKYEEFLELLKDFKAQRIDTEAVKEGVMELFKEHQYLISRFNIFMPPGHEISLPLDDDQQQGDGLEFKDEQNDDELQSEGLALKDEQKNDEE*