AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0512070

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0512070 MtrunA17_Chr3g0118751 87.879 66 8 0 1 66 385 450 1.30e-35 124
Msa0512070 MtrunA17_Chr3g0118771 87.879 66 8 0 1 66 429 494 4.82e-35 123
Msa0512070 MtrunA17_Chr3g0118721 83.333 66 11 0 1 66 230 295 7.30e-33 114
Msa0512070 MtrunA17_Chr3g0118691 78.788 66 14 0 1 66 423 488 2.16e-32 115
Msa0512070 MtrunA17_Chr3g0118711 70.769 65 19 0 1 65 421 485 2.52e-29 107
Msa0512070 MtrunA17_Chr3g0118701 66.667 66 22 0 1 66 423 488 3.81e-27 101
Msa0512070 MtrunA17_Chr3g0118671 69.231 65 20 0 1 65 414 478 3.77e-26 98.6
Msa0512070 MtrunA17_Chr6g0454351 52.459 61 29 0 1 61 405 465 3.80e-17 73.2
Msa0512070 MtrunA17_Chr7g0217881 55.738 61 27 0 1 61 402 462 5.44e-17 72.8
Msa0512070 MtrunA17_Chr4g0050341 58.333 60 25 0 1 60 431 490 6.44e-17 72.8
Msa0512070 MtrunA17_Chr6g0454151 53.125 64 30 0 1 64 418 481 1.31e-16 71.6
Msa0512070 MtrunA17_Chr6g0454221 56.452 62 27 0 1 62 171 232 2.21e-16 70.5
Msa0512070 MtrunA17_Chr6g0454301 57.377 61 26 0 1 61 671 731 2.42e-16 71.2
Msa0512070 MtrunA17_Chr6g0454301 50.847 59 29 0 1 59 170 228 1.10e-13 63.5
Msa0512070 MtrunA17_Chr6g0454291 55.738 61 27 0 1 61 417 477 2.67e-16 70.9
Msa0512070 MtrunA17_Chr6g0454191 55.738 61 27 0 1 61 421 481 4.40e-16 70.5
Msa0512070 MtrunA17_Chr6g0452771 55.738 61 27 0 1 61 420 480 4.80e-16 70.1
Msa0512070 MtrunA17_Chr6g0454401 55.738 61 27 0 1 61 421 481 5.05e-16 70.1
Msa0512070 MtrunA17_Chr3g0118661 59.091 66 27 0 1 66 420 485 5.20e-16 70.1
Msa0512070 MtrunA17_Chr6g0454331 55.738 61 27 0 1 61 419 479 5.51e-16 70.1
Msa0512070 MtrunA17_Chr2g0278711 58.929 56 23 0 6 61 422 477 1.46e-15 68.9
Msa0512070 MtrunA17_Chr6g0454201 55.000 60 27 0 2 61 422 481 1.55e-15 68.9
Msa0512070 MtrunA17_Chr3g0078841 50.820 61 30 0 1 61 418 478 2.41e-15 68.2
Msa0512070 MtrunA17_Chr6g0454171 52.459 61 29 0 1 61 250 310 2.65e-15 67.8
Msa0512070 MtrunA17_Chr6g0454121 52.459 61 29 0 1 61 419 479 2.98e-15 67.8
Msa0512070 MtrunA17_Chr8g0336331 54.098 61 28 0 1 61 417 477 4.20e-15 67.4
Msa0512070 MtrunA17_Chr6g0453961 52.459 61 29 0 1 61 430 490 4.25e-15 67.4
Msa0512070 MtrunA17_Chr6g0454341 50.820 61 30 0 1 61 418 478 5.80e-15 67.0
Msa0512070 MtrunA17_Chr6g0454261 55.000 60 27 0 2 61 421 480 6.15e-15 67.0
Msa0512070 MtrunA17_Chr6g0454131 50.820 61 30 0 1 61 419 479 6.98e-15 67.0
Msa0512070 MtrunA17_Chr6g0454211 52.459 61 29 0 1 61 707 767 1.74e-14 65.9
Msa0512070 MtrunA17_Chr5g0423981 50.820 61 30 0 1 61 385 445 2.22e-14 65.5
Msa0512070 MtrunA17_Chr5g0427561 51.613 62 30 0 1 62 25 86 1.26e-13 59.7
Msa0512070 MtrunA17_Chr6g0454141 47.541 61 32 0 1 61 420 480 1.47e-13 63.2
Msa0512070 MtrunA17_Chr6g0454371 49.180 61 31 0 1 61 111 171 1.55e-13 61.2
Msa0512070 MtrunA17_Chr6g0454271 54.098 61 28 0 1 61 227 287 1.96e-13 62.4
Msa0512070 MtrunA17_Chr6g0453951 45.902 61 33 0 1 61 467 527 2.48e-13 62.4
Msa0512070 MtrunA17_Chr8g0359821 52.459 61 29 0 1 61 418 478 3.03e-13 62.4
Msa0512070 MtrunA17_Chr6g0454361 47.541 61 32 0 1 61 421 481 1.06e-12 60.8
Msa0512070 MtrunA17_Chr6g0454181 47.541 61 32 0 1 61 420 480 1.10e-12 60.8
Msa0512070 MtrunA17_Chr6g0454231 51.613 62 29 1 1 61 158 219 1.32e-12 60.5
Msa0512070 MtrunA17_Chr5g0426431 52.632 57 26 1 6 61 422 478 4.19e-12 58.9
Msa0512070 MtrunA17_Chr8g0355011 47.541 61 32 0 1 61 302 362 4.74e-12 58.9
Msa0512070 MtrunA17_Chr6g0454321 45.161 62 31 1 1 62 418 476 2.59e-11 57.0
Msa0512070 MtrunA17_Chr3g0092641 47.368 57 29 1 6 61 422 478 4.56e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0512070 AT1G22400.1 46.774 62 32 1 1 61 421 482 6.58e-12 58.9
Msa0512070 AT1G22380.1 45.161 62 33 1 1 61 420 481 1.45e-11 57.8
Msa0512070 AT1G78270.1 43.548 62 34 1 1 61 420 481 2.06e-11 57.4
Msa0512070 AT1G22340.1 44.615 65 35 1 1 64 421 485 3.27e-11 57.0

Find 12 sgRNAs with CRISPR-Local

Find 12 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATCATTTCCACAACAAGTT+TGG 0.310409 3_4:-61743044 None:intergenic
GAAATGATGGAAGGAGAAAA+AGG 0.360157 3_4:+61743058 Msa0512070:CDS
AAATTAACTATGATGTGAAA+AGG 0.437634 3_4:+61743011 Msa0512070:CDS
AATTAACTATGATGTGAAAA+GGG 0.466340 3_4:+61743012 Msa0512070:CDS
CAAACTTGTTGTGGAAATGA+TGG 0.488894 3_4:+61743045 Msa0512070:CDS
AGAGATGAGACAAAATTGCT+TGG 0.504567 3_4:+61743084 Msa0512070:CDS
AGAGATAACCAAACTTGTTG+TGG 0.542980 3_4:+61743036 Msa0512070:CDS
AGCTACAGATGCTACTAATG+TGG 0.548442 3_4:+61743120 Msa0512070:CDS
TGAGACAAAATTGCTTGGAG+TGG 0.568580 3_4:+61743089 Msa0512070:CDS
GCTACAGATGCTACTAATGT+GGG 0.582080 3_4:+61743121 Msa0512070:CDS
CTTGTTGTGGAAATGATGGA+AGG 0.654423 3_4:+61743049 Msa0512070:CDS
ACAGATGCTACTAATGTGGG+AGG 0.700783 3_4:+61743124 Msa0512070:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTAACTATGATGTGAAA+AGG + chr3_4:61743011-61743030 Msa0512070:CDS 20.0%
!! AATTAACTATGATGTGAAAA+GGG + chr3_4:61743012-61743031 Msa0512070:CDS 20.0%
!! AGAGATAACCAAACTTGTTG+TGG + chr3_4:61743036-61743055 Msa0512070:CDS 35.0%
CATCATTTCCACAACAAGTT+TGG - chr3_4:61743047-61743066 None:intergenic 35.0%
!! CAAACTTGTTGTGGAAATGA+TGG + chr3_4:61743045-61743064 Msa0512070:CDS 35.0%
! GAAATGATGGAAGGAGAAAA+AGG + chr3_4:61743058-61743077 Msa0512070:CDS 35.0%
AGAGATGAGACAAAATTGCT+TGG + chr3_4:61743084-61743103 Msa0512070:CDS 35.0%
! CTTGTTGTGGAAATGATGGA+AGG + chr3_4:61743049-61743068 Msa0512070:CDS 40.0%
TGAGACAAAATTGCTTGGAG+TGG + chr3_4:61743089-61743108 Msa0512070:CDS 40.0%
AGCTACAGATGCTACTAATG+TGG + chr3_4:61743120-61743139 Msa0512070:CDS 40.0%
GCTACAGATGCTACTAATGT+GGG + chr3_4:61743121-61743140 Msa0512070:CDS 40.0%
ACAGATGCTACTAATGTGGG+AGG + chr3_4:61743124-61743143 Msa0512070:CDS 45.0%
Chromosome Type Strat End Strand Name
chr3_4 gene 61743007 61743207 61743007 ID=Msa0512070;Name=Msa0512070
chr3_4 mRNA 61743007 61743207 61743007 ID=Msa0512070-mRNA-1;Parent=Msa0512070;Name=Msa0512070-mRNA-1;_AED=0.44;_eAED=0.44;_QI=0|-1|0|1|-1|1|1|0|66
chr3_4 exon 61743007 61743207 61743007 ID=Msa0512070-mRNA-1:exon:15107;Parent=Msa0512070-mRNA-1
chr3_4 CDS 61743007 61743207 61743007 ID=Msa0512070-mRNA-1:cds;Parent=Msa0512070-mRNA-1
Gene Sequence

>Msa0512070

ATGGAAATTAACTATGATGTGAAAAGGGAAGAGATAACCAAACTTGTTGTGGAAATGATGGAAGGAGAAAAAGGAAAAGAGATGAGACAAAATTGCTTGGAGTGGAAGAAGAAAGCTACAGATGCTACTAATGTGGGAGGATCATCATACAATAATTTCTATAATTTAATTAAAGAGCTTCTTCATCACAATGCTATTTGA
Protein sequence

>Msa0512070

MEINYDVKREEITKLVVEMMEGEKGKEMRQNCLEWKKKATDATNVGGSSYNNFYNLIKELLHHNAI*