AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380013424.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013424.01.T01 MTR_3g450800 96.000 75 3 0 1 75 181 255 6.04e-45 154
MsG0380013424.01.T01 MTR_2g037830 88.000 75 9 0 1 75 230 304 1.23e-42 146
MsG0380013424.01.T01 MTR_2g037830 88.000 75 9 0 1 75 230 304 1.55e-42 148
MsG0380013424.01.T01 MTR_0011s0020 89.333 75 8 0 1 75 230 304 1.59e-42 148
MsG0380013424.01.T01 MTR_3g005560 81.944 72 13 0 4 75 233 304 4.34e-37 130
MsG0380013424.01.T01 MTR_3g005560 81.944 72 13 0 4 75 233 304 1.64e-36 130
MsG0380013424.01.T01 MTR_3g005560 81.944 72 13 0 4 75 233 304 2.16e-36 130
MsG0380013424.01.T01 MTR_1g073740 58.427 89 36 1 1 88 254 342 5.58e-28 107
MsG0380013424.01.T01 MTR_4g088225 56.180 89 38 1 1 88 254 342 1.44e-26 103
MsG0380013424.01.T01 MTR_4g088225 56.180 89 38 1 1 88 254 342 1.49e-26 103
MsG0380013424.01.T01 MTR_3g060280 51.316 76 37 0 1 76 268 343 3.71e-23 92.8
MsG0380013424.01.T01 MTR_3g060280 51.316 76 37 0 1 76 268 343 7.26e-23 92.4
MsG0380013424.01.T01 MTR_3g060280 51.316 76 37 0 1 76 268 343 9.72e-23 92.0
MsG0380013424.01.T01 MTR_3g060280 51.316 76 37 0 1 76 268 343 1.14e-22 92.0
MsG0380013424.01.T01 MTR_3g060220 48.684 76 39 0 1 76 258 333 2.66e-22 90.9
MsG0380013424.01.T01 MTR_3g060220 48.684 76 39 0 1 76 257 332 2.69e-22 90.9
MsG0380013424.01.T01 MTR_3g060240 48.684 76 39 0 1 76 258 333 2.90e-22 90.9
MsG0380013424.01.T01 MTR_2g087900 48.000 75 39 0 1 75 252 326 5.63e-22 89.0
MsG0380013424.01.T01 MTR_4g130510 47.297 74 39 0 1 74 494 567 7.30e-22 89.7
MsG0380013424.01.T01 MTR_4g130510 47.297 74 39 0 1 74 494 567 1.13e-21 89.4
MsG0380013424.01.T01 MTR_4g130510 47.297 74 39 0 1 74 494 567 1.17e-21 89.0
MsG0380013424.01.T01 MTR_3g030040 48.649 74 38 0 1 74 514 587 1.21e-21 89.0
MsG0380013424.01.T01 MTR_1g098550 48.649 74 38 0 1 74 530 603 1.35e-21 89.0
MsG0380013424.01.T01 MTR_2g087900 48.000 75 39 0 1 75 252 326 1.35e-21 89.0
MsG0380013424.01.T01 MTR_1g098550 48.649 74 38 0 1 74 534 607 1.39e-21 89.0
MsG0380013424.01.T01 MTR_2g087900 48.000 75 39 0 1 75 252 326 1.78e-21 88.6
MsG0380013424.01.T01 MTR_8g037260 48.649 74 38 0 1 74 514 587 1.89e-21 88.6
MsG0380013424.01.T01 MTR_2g087900 49.315 73 37 0 1 73 252 324 2.59e-21 87.8
MsG0380013424.01.T01 MTR_8g086600 47.297 74 39 0 1 74 439 512 4.50e-21 87.4
MsG0380013424.01.T01 MTR_2g087960 44.872 78 43 0 1 78 253 330 5.62e-21 87.0
MsG0380013424.01.T01 MTR_2g035780 46.667 75 40 0 1 75 465 539 6.93e-21 87.0
MsG0380013424.01.T01 MTR_2g087960 44.872 78 43 0 1 78 253 330 8.62e-21 86.7
MsG0380013424.01.T01 MTR_7g106680 48.649 74 38 0 1 74 472 545 1.60e-20 85.9
MsG0380013424.01.T01 MTR_2g087980 43.590 78 44 0 1 78 243 320 1.87e-20 85.5
MsG0380013424.01.T01 MTR_2g087950 45.333 75 41 0 1 75 248 322 2.72e-20 85.1
MsG0380013424.01.T01 MTR_8g092590 44.595 74 41 0 1 74 532 605 3.16e-20 85.1
MsG0380013424.01.T01 MTR_4g050000 45.333 75 41 0 1 75 247 321 3.62e-20 84.7
MsG0380013424.01.T01 MTR_2g016630 46.667 75 40 0 1 75 424 498 5.67e-20 84.3
MsG0380013424.01.T01 MTR_3g107520 48.649 74 38 0 1 74 524 597 6.29e-20 84.3
MsG0380013424.01.T01 MTR_8g063270 47.297 74 39 0 1 74 447 520 1.29e-19 83.2
MsG0380013424.01.T01 MTR_8g063270 47.297 74 39 0 1 74 242 315 2.48e-19 82.4
MsG0380013424.01.T01 MTR_1g069605 48.000 75 39 0 1 75 354 428 4.19e-18 79.0
MsG0380013424.01.T01 MTR_3g007770 44.595 74 41 0 1 74 481 554 6.50e-18 78.6
MsG0380013424.01.T01 MTR_1g039445 43.243 74 41 1 1 74 558 630 1.52e-17 77.4
MsG0380013424.01.T01 MTR_5g029190 44.928 69 38 0 1 69 567 635 2.51e-17 76.6
MsG0380013424.01.T01 MTR_2g438220 48.438 64 33 0 1 64 475 538 5.13e-17 75.9
MsG0380013424.01.T01 MTR_4g077910 50.000 64 32 0 1 64 588 651 5.69e-17 75.9
MsG0380013424.01.T01 MTR_1g039480 42.667 75 42 1 1 75 572 645 1.10e-16 75.1
MsG0380013424.01.T01 MTR_7g109200 50.000 64 32 0 1 64 611 674 2.99e-16 73.6
MsG0380013424.01.T01 MTR_7g116230 48.438 64 33 0 1 64 409 472 2.34e-15 71.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013424.01.T01 AT5G64740 50.000 74 37 0 1 74 519 592 8.37e-23 92.4
MsG0380013424.01.T01 AT5G09870 50.000 74 37 0 1 74 507 580 8.61e-23 92.4
MsG0380013424.01.T01 AT4G39350 50.000 74 37 0 1 74 520 593 3.55e-22 90.5
MsG0380013424.01.T01 AT5G17420 45.946 74 40 0 1 74 481 554 3.15e-21 87.8
MsG0380013424.01.T01 AT2G21770 48.000 75 39 0 1 75 525 599 4.65e-21 87.4
MsG0380013424.01.T01 AT4G24010 49.333 75 38 0 1 75 262 336 1.02e-20 86.7
MsG0380013424.01.T01 AT5G44030 46.667 75 40 0 1 75 179 253 3.38e-20 85.1
MsG0380013424.01.T01 AT5G05170 46.667 75 40 0 1 75 502 576 4.01e-20 84.7
MsG0380013424.01.T01 AT5G44030 46.667 75 40 0 1 75 487 561 4.34e-20 84.7
MsG0380013424.01.T01 AT5G44030 46.667 75 40 0 1 75 458 532 4.77e-20 84.7
MsG0380013424.01.T01 AT4G18780 46.667 75 40 0 1 75 427 501 5.29e-20 84.3
MsG0380013424.01.T01 AT4G32410 47.297 74 39 0 1 74 518 591 6.33e-20 84.3
MsG0380013424.01.T01 AT4G24000 48.000 75 39 0 1 75 60 134 1.18e-19 83.6
MsG0380013424.01.T01 AT4G24000 48.000 75 39 0 1 75 252 326 1.23e-19 83.6
MsG0380013424.01.T01 AT4G23990 48.000 75 39 0 1 75 67 141 1.50e-19 83.2
MsG0380013424.01.T01 AT4G23990 48.000 75 39 0 1 75 281 355 1.52e-19 83.2
MsG0380013424.01.T01 AT4G15320 51.316 76 36 1 1 75 266 341 2.18e-19 82.8
MsG0380013424.01.T01 AT1G55850 44.186 86 48 0 1 86 266 351 2.30e-19 82.8
MsG0380013424.01.T01 AT2G32620 48.684 76 38 1 1 75 155 230 2.39e-19 82.4
MsG0380013424.01.T01 AT4G15320 51.316 76 36 1 1 75 251 326 2.52e-19 82.4
MsG0380013424.01.T01 AT2G32540 51.316 76 36 1 1 75 251 326 2.70e-19 82.4
MsG0380013424.01.T01 AT2G32620 48.684 76 38 1 1 75 251 326 2.70e-19 82.4
MsG0380013424.01.T01 AT4G15320 51.316 76 36 1 1 75 251 326 2.70e-19 82.4
MsG0380013424.01.T01 AT2G32620 48.684 76 38 1 1 75 251 326 3.23e-19 82.0
MsG0380013424.01.T01 AT2G32620 48.684 76 38 1 1 75 251 326 3.42e-19 82.0
MsG0380013424.01.T01 AT2G32530 50.000 76 37 1 1 75 251 326 4.42e-19 81.6
MsG0380013424.01.T01 AT4G15290 51.316 76 36 1 1 75 251 326 5.75e-19 81.6
MsG0380013424.01.T01 AT2G25540 46.667 75 40 0 1 75 498 572 6.01e-19 81.6
MsG0380013424.01.T01 AT2G32610 47.368 76 39 1 1 75 252 327 1.47e-17 77.4
MsG0380013424.01.T01 AT5G16910 50.000 64 32 0 1 64 594 657 4.67e-17 76.3
MsG0380013424.01.T01 AT3G03050 50.000 64 32 0 1 64 591 654 5.96e-17 75.9
MsG0380013424.01.T01 AT1G02730 50.000 64 32 0 1 64 619 682 1.30e-16 74.7
MsG0380013424.01.T01 AT1G32180 46.875 64 34 0 1 64 428 491 2.41e-16 73.9
MsG0380013424.01.T01 AT1G32180 46.875 64 34 0 1 64 428 491 2.41e-16 73.9
MsG0380013424.01.T01 AT4G38190 41.333 75 43 1 1 75 569 642 6.29e-16 72.8
MsG0380013424.01.T01 AT2G33100 45.312 64 35 0 1 64 482 545 2.11e-15 71.2
MsG0380013424.01.T01 AT2G33100 45.312 64 35 0 1 64 482 545 2.11e-15 71.2

Find 23 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATTACAGCTTAGGGTTTC+AGG 0.132827 3:+37573594 MsG0380013424.01.T01:intron
GCAAGATCTTTGGAGGTTTC+AGG 0.182973 3:-37573714 None:intergenic
CAATCTAAGACAAGTAAATA+AGG 0.260314 3:-37573633 None:intergenic
AATAAACAGACATAAATTAA+TGG 0.303347 3:-37573849 None:intergenic
ATTGACAAAAGCAAGATCTT+TGG 0.324570 3:-37573724 None:intergenic
GACATAAATTAATGGATAGA+AGG 0.395112 3:-37573841 None:intergenic
TATCTTTCTTGCTGAGGTTG+TGG 0.415505 3:-37573760 None:intergenic
GAAAGATATATATGATAGTC+AGG 0.437126 3:+37573775 MsG0380013424.01.T01:CDS
GATTACAGCTTAGGGTTTCA+GGG 0.439711 3:+37573595 MsG0380013424.01.T01:intron
TTGTATCTATGAGGAACATA+TGG 0.444562 3:-37573443 None:intergenic
CTGAGGTTGTGGAACATTTG+AGG 0.465490 3:-37573749 None:intergenic
AATCTAAGACAAGTAAATAA+GGG 0.470736 3:-37573632 None:intergenic
GACAAAAGCAAGATCTTTGG+AGG 0.486349 3:-37573721 None:intergenic
CATATATATCTTTCTTGCTG+AGG 0.513706 3:-37573766 None:intergenic
TGAGGTTGTGGAACATTTGA+GGG 0.514296 3:-37573748 None:intergenic
GCTCCTCCTTTGTATCTATG+AGG 0.526763 3:-37573452 None:intergenic
TGACGAAAAGGAAATGCCAC+TGG 0.604632 3:+37573394 None:intergenic
TATGTTCCTCATAGATACAA+AGG 0.607561 3:+37573446 MsG0380013424.01.T01:CDS
ATATATATGATAGTCAGGCT+AGG 0.626693 3:+37573780 MsG0380013424.01.T01:CDS
AGGAGGAGCACTCAATACAT+TGG 0.635787 3:+37573466 MsG0380013424.01.T01:CDS
GTTTCAGGGCTAATCAGCAA+TGG 0.643883 3:+37573609 MsG0380013424.01.T01:CDS
CGAGACACATAAACAACCAG+TGG 0.668168 3:-37573410 None:intergenic
GTTCCTCATAGATACAAAGG+AGG 0.702078 3:+37573449 MsG0380013424.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAAACAGACATAAATTAA+TGG - Chr3:37573852-37573871 None:intergenic 15.0%
!! TAATTAAAGAAGAAATTACG+AGG - Chr3:37573521-37573540 None:intergenic 20.0%
!!! AATCTAAGACAAGTAAATAA+GGG - Chr3:37573635-37573654 None:intergenic 20.0%
! GAAAGATATATATGATAGTC+AGG + Chr3:37573775-37573794 MsG0380013424.01.T01:CDS 25.0%
!! CAATCTAAGACAAGTAAATA+AGG - Chr3:37573636-37573655 None:intergenic 25.0%
!! GAAGGTGAAGATTTTAAATT+TGG - Chr3:37573826-37573845 None:intergenic 25.0%
!! GACATAAATTAATGGATAGA+AGG - Chr3:37573844-37573863 None:intergenic 25.0%
ATATATATGATAGTCAGGCT+AGG + Chr3:37573780-37573799 MsG0380013424.01.T01:CDS 30.0%
ATCAAATGTGATTACAGCTT+AGG + Chr3:37573586-37573605 MsG0380013424.01.T01:intron 30.0%
ATTGACAAAAGCAAGATCTT+TGG - Chr3:37573727-37573746 None:intergenic 30.0%
CATATATATCTTTCTTGCTG+AGG - Chr3:37573769-37573788 None:intergenic 30.0%
TATGTTCCTCATAGATACAA+AGG + Chr3:37573446-37573465 MsG0380013424.01.T01:CDS 30.0%
TCAAATGTGATTACAGCTTA+GGG + Chr3:37573587-37573606 MsG0380013424.01.T01:intron 30.0%
TTGTATCTATGAGGAACATA+TGG - Chr3:37573446-37573465 None:intergenic 30.0%
! AAAAAAGCACATGGATTGTT+TGG - Chr3:37573688-37573707 None:intergenic 30.0%
! AGGATCAAGAAAAAAGCACA+TGG - Chr3:37573697-37573716 None:intergenic 35.0%
GACAAAAGCAAGATCTTTGG+AGG - Chr3:37573724-37573743 None:intergenic 40.0%
GATTACAGCTTAGGGTTTCA+GGG + Chr3:37573595-37573614 MsG0380013424.01.T01:intron 40.0%
GTTCCTCATAGATACAAAGG+AGG + Chr3:37573449-37573468 MsG0380013424.01.T01:CDS 40.0%
TATCTTTCTTGCTGAGGTTG+TGG - Chr3:37573763-37573782 None:intergenic 40.0%
TGAGGTTGTGGAACATTTGA+GGG - Chr3:37573751-37573770 None:intergenic 40.0%
TGATTACAGCTTAGGGTTTC+AGG + Chr3:37573594-37573613 MsG0380013424.01.T01:intron 40.0%
! TCAGGCTAGGAATGCTTTTA+TGG + Chr3:37573793-37573812 MsG0380013424.01.T01:CDS 40.0%
CGAGACACATAAACAACCAG+TGG - Chr3:37573413-37573432 None:intergenic 45.0%
CTGAGGTTGTGGAACATTTG+AGG - Chr3:37573752-37573771 None:intergenic 45.0%
GCTCCTCCTTTGTATCTATG+AGG - Chr3:37573455-37573474 None:intergenic 45.0%
GTTTCAGGGCTAATCAGCAA+TGG + Chr3:37573609-37573628 MsG0380013424.01.T01:CDS 45.0%
! GCAAGATCTTTGGAGGTTTC+AGG - Chr3:37573717-37573736 None:intergenic 45.0%
!! AGGAGGAGCACTCAATACAT+TGG + Chr3:37573466-37573485 MsG0380013424.01.T01:CDS 45.0%
Chromosome Type Strat End Strand Name
Chr3 gene 37573407 37573881 37573407 ID=MsG0380013424.01;Name=MsG0380013424.01
Chr3 mRNA 37573407 37573881 37573407 ID=MsG0380013424.01.T01;Parent=MsG0380013424.01;Name=MsG0380013424.01.T01;_AED=0.42;_eAED=0.53;_QI=0|0|0|1|0|0|2|0|119
Chr3 exon 37573407 37573487 37573407 ID=MsG0380013424.01.T01:exon:7900;Parent=MsG0380013424.01.T01
Chr3 exon 37573603 37573881 37573603 ID=MsG0380013424.01.T01:exon:7901;Parent=MsG0380013424.01.T01
Chr3 CDS 37573407 37573487 37573407 ID=MsG0380013424.01.T01:cds;Parent=MsG0380013424.01.T01
Chr3 CDS 37573603 37573881 37573603 ID=MsG0380013424.01.T01:cds;Parent=MsG0380013424.01.T01
Gene Sequence

>MsG0380013424.01.T01

ATGCCACTGGTTGTTTATGTGTCTCGTGAAAGAAGACCATATGTTCCTCATAGATACAAAGGAGGAGCACTCAATACATTGCTTAGGGTTTCAGGGCTAATCAGCAATGGCCCTTATTTACTTGTCTTAGATTGTGATATGAATTGTAATGATTCATCATCAGCCAAACAATCCATGTGCTTTTTTCTTGATCCTGAAACCTCCAAAGATCTTGCTTTTGTCAATTCCCTCAAATGTTCCACAACCTCAGCAAGAAAGATATATATGATAGTCAGGCTAGGAATGCTTTTATGGTATGTCACCAAATTTAAAATCTTCACCTTCTATCCATTAATTTATGTCTGTTTATTTAGTTTATGA

Protein sequence

>MsG0380013424.01.T01

MPLVVYVSRERRPYVPHRYKGGALNTLLRVSGLISNGPYLLVLDCDMNCNDSSSAKQSMCFFLDPETSKDLAFVNSLKCSTTSARKIYMIVRLGMLLWYVTKFKIFTFYPLIYVCLFSL*