AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene58612

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58612.t1 MTR_5g035910 96.154 52 2 0 14 65 511 562 2.78e-29 108
MS.gene58612.t1 MTR_7g063030 92.308 52 4 0 14 65 502 553 2.91e-28 105
MS.gene58612.t1 MTR_7g063030 92.308 52 4 0 14 65 508 559 4.07e-28 104
MS.gene58612.t1 MTR_7g063010 88.462 52 6 0 14 65 504 555 7.64e-27 101
MS.gene58612.t1 MTR_3g068025 84.615 52 8 0 14 65 514 565 1.04e-24 95.1
MS.gene58612.t1 MTR_7g062950 65.385 52 18 0 14 65 506 557 6.09e-17 73.2
MS.gene58612.t1 MTR_1g052275 63.462 52 19 0 14 65 508 559 8.23e-17 72.8
MS.gene58612.t1 MTR_7g062990 61.111 54 19 1 14 65 512 565 1.00e-16 72.4
MS.gene58612.t1 MTR_7g062940 61.538 52 20 0 14 65 505 556 5.15e-16 70.5
MS.gene58612.t1 MTR_7g062680 61.538 52 20 0 14 65 516 567 5.15e-16 70.5
MS.gene58612.t1 MTR_7g062700 59.615 52 21 0 14 65 508 559 1.48e-15 68.9
MS.gene58612.t1 MTR_7g062750 59.615 52 21 0 14 65 508 559 1.57e-15 68.9
MS.gene58612.t1 MTR_7g062890 61.538 52 20 0 14 65 504 555 2.14e-15 68.6
MS.gene58612.t1 MTR_2g090410 59.615 52 17 1 14 65 1216 1263 6.72e-15 67.4
MS.gene58612.t1 MTR_2g090410 64.865 37 13 0 14 50 513 549 1.64e-12 60.5
MS.gene58612.t1 MTR_7g062660 61.538 52 20 0 14 65 499 550 7.25e-15 67.0
MS.gene58612.t1 MTR_2g090250 76.316 38 9 0 14 51 511 548 1.13e-14 66.6
MS.gene58612.t1 MTR_7g062770 59.615 52 21 0 14 65 510 561 1.76e-14 65.9
MS.gene58612.t1 MTR_7g062920 59.615 52 21 0 14 65 506 557 2.46e-14 65.5
MS.gene58612.t1 MTR_4g093070 54.717 53 23 1 14 65 513 565 5.53e-14 64.7
MS.gene58612.t1 MTR_3g460810 55.769 52 22 1 14 65 492 542 1.09e-13 63.9
MS.gene58612.t1 MTR_4g105070 55.769 52 23 0 14 65 520 571 1.29e-13 63.5
MS.gene58612.t1 MTR_4g093110 50.980 51 25 0 15 65 508 558 2.19e-13 62.8
MS.gene58612.t1 MTR_4g093140 50.980 51 25 0 15 65 508 558 2.20e-13 62.8
MS.gene58612.t1 MTR_8g068050 50.000 52 26 0 14 65 520 571 2.51e-13 62.8
MS.gene58612.t1 MTR_8g068050 50.000 52 26 0 14 65 410 461 3.35e-13 62.4
MS.gene58612.t1 MTR_4g093080 51.923 52 24 1 14 65 515 565 3.38e-13 62.4
MS.gene58612.t1 MTR_2g013720 65.789 38 13 0 14 51 519 556 3.47e-13 62.4
MS.gene58612.t1 MTR_3g007870 51.923 52 24 1 14 65 512 562 4.78e-13 62.0
MS.gene58612.t1 MTR_5g095970 51.923 52 24 1 14 65 525 575 4.79e-13 62.0
MS.gene58612.t1 MTR_4g093050 49.020 51 26 0 15 65 513 563 1.54e-12 60.5
MS.gene58612.t1 MTR_7g062900 55.769 52 23 0 14 65 464 515 2.59e-12 59.7
MS.gene58612.t1 MTR_7g116130 42.308 52 30 0 14 65 521 572 3.37e-12 59.7
MS.gene58612.t1 MTR_5g077100 60.976 41 16 0 14 54 533 573 1.42e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58612.t1 AT3G55550 73.077 52 14 0 14 65 512 563 7.31e-21 84.3
MS.gene58612.t1 AT1G70110 65.385 52 18 0 14 65 509 560 5.88e-20 81.6
MS.gene58612.t1 AT3G59740 65.385 52 18 0 14 65 502 553 2.28e-19 80.1
MS.gene58612.t1 AT2G37710 67.925 53 16 1 14 65 512 564 1.54e-18 77.8
MS.gene58612.t1 AT1G70130 59.615 52 21 0 14 65 499 550 1.85e-18 77.4
MS.gene58612.t1 AT3G59750 63.462 52 19 0 14 65 469 520 2.87e-18 77.0
MS.gene58612.t1 AT4G29050 62.264 53 19 1 14 65 509 561 5.36e-18 76.3
MS.gene58612.t1 AT4G29050 62.264 53 19 1 14 65 523 575 5.36e-18 76.3
MS.gene58612.t1 AT4G02420 69.231 52 15 1 15 65 516 567 1.08e-17 75.1
MS.gene58612.t1 AT3G59700 59.615 52 21 0 14 65 504 555 3.62e-17 73.6
MS.gene58612.t1 AT3G53810 62.264 53 19 1 14 65 512 564 3.95e-16 70.9
MS.gene58612.t1 AT4G02410 66.667 48 16 0 15 62 521 568 6.25e-16 70.1
MS.gene58612.t1 AT5G59260 51.923 52 25 0 14 65 520 571 1.74e-15 68.9
MS.gene58612.t1 AT2G43700 55.102 49 22 0 16 64 502 550 4.11e-15 67.8
MS.gene58612.t1 AT2G43700 55.102 49 22 0 16 64 478 526 4.84e-15 67.8
MS.gene58612.t1 AT2G43700 55.102 49 22 0 16 64 478 526 4.84e-15 67.8
MS.gene58612.t1 AT2G43700 55.102 49 22 0 16 64 478 526 4.84e-15 67.8
MS.gene58612.t1 AT2G43700 55.102 49 22 0 16 64 478 526 4.84e-15 67.8
MS.gene58612.t1 AT3G08870 55.769 52 19 1 14 65 535 582 1.20e-14 66.6
MS.gene58612.t1 AT3G08870 55.769 52 19 1 14 65 556 603 1.20e-14 66.6
MS.gene58612.t1 AT5G01540 55.769 52 19 1 14 65 534 581 1.45e-14 66.2
MS.gene58612.t1 AT4G04960 60.784 51 16 1 15 65 516 562 1.95e-14 65.9
MS.gene58612.t1 AT4G04960 60.784 51 16 1 15 65 516 562 3.32e-14 65.5
MS.gene58612.t1 AT5G59270 48.077 52 27 0 14 65 514 565 7.46e-14 64.3
MS.gene58612.t1 AT5G59270 48.077 52 27 0 14 65 517 568 7.46e-14 64.3
MS.gene58612.t1 AT5G59270 48.077 52 27 0 14 65 533 584 7.47e-14 64.3
MS.gene58612.t1 AT5G01550 53.846 52 20 1 14 65 548 595 1.40e-13 63.5
MS.gene58612.t1 AT5G60280 55.769 52 22 1 14 65 502 552 1.83e-13 63.2
MS.gene58612.t1 AT2G29220 49.020 51 26 0 15 65 506 556 2.08e-13 63.2
MS.gene58612.t1 AT4G28350 67.568 37 12 0 15 51 517 553 4.33e-13 62.0
MS.gene58612.t1 AT2G43690 47.059 51 27 0 14 64 465 515 4.63e-13 62.0
MS.gene58612.t1 AT2G43690 47.059 51 27 0 14 64 501 551 5.52e-13 62.0
MS.gene58612.t1 AT2G43690 47.059 51 27 0 14 64 501 551 5.52e-13 62.0
MS.gene58612.t1 AT5G01560 51.923 52 21 1 14 65 531 578 8.92e-13 61.2
MS.gene58612.t1 AT2G29250 49.020 51 26 0 15 65 505 555 1.09e-12 60.8
MS.gene58612.t1 AT5G60320 51.923 52 24 1 14 65 512 562 1.16e-12 60.8
MS.gene58612.t1 AT5G60310 48.077 52 26 1 14 65 507 557 1.25e-12 60.8
MS.gene58612.t1 AT3G45440 53.846 52 23 1 14 65 559 609 1.67e-12 60.5
MS.gene58612.t1 AT5G55830 49.057 53 26 1 14 65 533 585 1.77e-12 60.5
MS.gene58612.t1 AT3G45440 53.846 52 23 1 14 65 506 556 1.91e-12 60.5
MS.gene58612.t1 AT3G45440 53.846 52 23 1 14 65 506 556 1.91e-12 60.5
MS.gene58612.t1 AT3G45440 53.846 52 23 1 14 65 506 556 1.91e-12 60.5
MS.gene58612.t1 AT3G46760 53.846 52 24 0 14 65 205 256 2.56e-12 59.7
MS.gene58612.t1 AT3G45430 53.846 52 23 1 14 65 508 558 4.93e-12 59.3
MS.gene58612.t1 AT3G45430 53.846 52 23 1 14 65 508 558 4.93e-12 59.3
MS.gene58612.t1 AT3G45430 53.846 52 23 1 14 65 508 558 4.93e-12 59.3
MS.gene58612.t1 AT5G60270 51.923 52 24 1 14 65 508 558 5.13e-12 58.9
MS.gene58612.t1 AT3G45420 53.846 52 23 1 14 65 514 564 6.48e-12 58.9
MS.gene58612.t1 AT1G15530 55.769 52 22 1 14 65 525 575 7.22e-12 58.5
MS.gene58612.t1 AT5G60300 51.923 52 24 1 14 65 508 558 1.63e-11 57.8
MS.gene58612.t1 AT5G60300 51.923 52 24 1 14 65 508 558 1.74e-11 57.8
MS.gene58612.t1 AT5G60300 51.923 52 24 1 14 65 508 558 1.74e-11 57.8
MS.gene58612.t1 AT3G53380 65.789 38 13 0 14 51 540 577 1.88e-11 57.4
MS.gene58612.t1 AT1G31420 44.231 52 29 0 14 65 469 520 3.72e-11 56.6
MS.gene58612.t1 AT1G31420 44.231 52 29 0 14 65 470 521 3.72e-11 56.6
MS.gene58612.t1 AT1G31420 44.231 52 29 0 14 65 470 521 3.72e-11 56.6
MS.gene58612.t1 AT2G11520 47.059 51 27 0 14 64 392 442 3.89e-11 56.6
MS.gene58612.t1 AT3G45390 51.923 52 24 1 14 65 499 549 6.98e-11 55.8

Find 24 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGGAACCTTTAGGCTATT+TGG 0.232555 5.3:+24409721 MS.gene58612:CDS
GTAGATGCTCTTCCTGTTCT+AGG 0.275295 5.3:-24409755 None:intergenic
CCCACCACTCTTGTGGTCCC+TGG 0.357271 5.3:-24409703 None:intergenic
TTCTGCTTGAGGTTGCTTGT+GGG 0.368531 5.3:+24409807 MS.gene58612:CDS
ACAAGAAGAGTTAGTGTTTG+TGG 0.392340 5.3:+24409856 MS.gene58612:CDS
TGTAATGCCTTAGACTCAAT+AGG 0.409339 5.3:-24409836 None:intergenic
GAGAAGGCCTATTGAGTCTA+AGG 0.417516 5.3:+24409829 MS.gene58612:CDS
GCACCGGAGTTGCCTAGAAC+AGG 0.425900 5.3:+24409743 MS.gene58612:CDS
CAAGAGTGGTGGGAACCTTT+AGG 0.440507 5.3:+24409713 MS.gene58612:CDS
AGAGTTAGTGTTTGTGGACT+GGG 0.448490 5.3:+24409862 MS.gene58612:CDS
TATGAACATGGTGCTAATCC+AGG 0.453333 5.3:+24409685 None:intergenic
CTTCTGCTTGAGGTTGCTTG+TGG 0.454996 5.3:+24409806 MS.gene58612:CDS
TTGAGGTTGCTTGTGGGAGA+AGG 0.474358 5.3:+24409813 MS.gene58612:CDS
ATTTGGTGCACTTCTGCTTG+AGG 0.507190 5.3:+24409796 MS.gene58612:CDS
ACCTTTAGGCTATTTGGCAC+CGG 0.525213 5.3:+24409727 MS.gene58612:CDS
AAGAGTTAGTGTTTGTGGAC+TGG 0.531353 5.3:+24409861 MS.gene58612:CDS
AAAGGTTCCCACCACTCTTG+TGG 0.545636 5.3:-24409710 None:intergenic
AGTGTTTGTGGACTGGGTGT+AGG 0.546562 5.3:+24409868 MS.gene58612:CDS
TCCGGTGCCAAATAGCCTAA+AGG 0.552067 5.3:-24409728 None:intergenic
TCCAGGGACCACAAGAGTGG+TGG 0.564859 5.3:+24409702 MS.gene58612:CDS
CTTCCTGTTCTAGGCAACTC+CGG 0.587316 5.3:-24409746 None:intergenic
ATGAACATGGTGCTAATCCA+GGG 0.605499 5.3:+24409686 None:intergenic
CCAGGGACCACAAGAGTGGT+GGG 0.611319 5.3:+24409703 MS.gene58612:CDS
TAATCCAGGGACCACAAGAG+TGG 0.669305 5.3:+24409699 MS.gene58612:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACAAGAAGAGTTAGTGTTTG+TGG + chr5.3:24409856-24409875 MS.gene58612:CDS 35.0%
TGTAATGCCTTAGACTCAAT+AGG - chr5.3:24409839-24409858 None:intergenic 35.0%
! AGTTCAGACGTTTTTGCATT+TGG + chr5.3:24409779-24409798 MS.gene58612:CDS 35.0%
AAGAGTTAGTGTTTGTGGAC+TGG + chr5.3:24409861-24409880 MS.gene58612:CDS 40.0%
AGAGTTAGTGTTTGTGGACT+GGG + chr5.3:24409862-24409881 MS.gene58612:CDS 40.0%
ACCTTTAGGCTATTTGGCAC+CGG + chr5.3:24409727-24409746 MS.gene58612:CDS 45.0%
GAGAAGGCCTATTGAGTCTA+AGG + chr5.3:24409829-24409848 MS.gene58612:CDS 45.0%
GTAGATGCTCTTCCTGTTCT+AGG - chr5.3:24409758-24409777 None:intergenic 45.0%
GTGGGAACCTTTAGGCTATT+TGG + chr5.3:24409721-24409740 MS.gene58612:CDS 45.0%
TTCTGCTTGAGGTTGCTTGT+GGG + chr5.3:24409807-24409826 MS.gene58612:CDS 45.0%
!! ATTTGGTGCACTTCTGCTTG+AGG + chr5.3:24409796-24409815 MS.gene58612:CDS 45.0%
AAAGGTTCCCACCACTCTTG+TGG - chr5.3:24409713-24409732 None:intergenic 50.0%
CTTCTGCTTGAGGTTGCTTG+TGG + chr5.3:24409806-24409825 MS.gene58612:CDS 50.0%
TAATCCAGGGACCACAAGAG+TGG + chr5.3:24409699-24409718 MS.gene58612:CDS 50.0%
TTGAGGTTGCTTGTGGGAGA+AGG + chr5.3:24409813-24409832 MS.gene58612:CDS 50.0%
! CAAGAGTGGTGGGAACCTTT+AGG + chr5.3:24409713-24409732 MS.gene58612:CDS 50.0%
! CTTCCTGTTCTAGGCAACTC+CGG - chr5.3:24409749-24409768 None:intergenic 50.0%
! TCCGGTGCCAAATAGCCTAA+AGG - chr5.3:24409731-24409750 None:intergenic 50.0%
CCAGGGACCACAAGAGTGGT+GGG + chr5.3:24409703-24409722 MS.gene58612:CDS 60.0%
GCACCGGAGTTGCCTAGAAC+AGG + chr5.3:24409743-24409762 MS.gene58612:CDS 60.0%
TCCAGGGACCACAAGAGTGG+TGG + chr5.3:24409702-24409721 MS.gene58612:CDS 60.0%
CCCACCACTCTTGTGGTCCC+TGG - chr5.3:24409706-24409725 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 24409692 24409889 24409692 ID=MS.gene58612
chr5.3 mRNA 24409692 24409889 24409692 ID=MS.gene58612.t1;Parent=MS.gene58612
chr5.3 exon 24409692 24409889 24409692 ID=MS.gene58612.t1.exon1;Parent=MS.gene58612.t1
chr5.3 CDS 24409692 24409889 24409692 ID=cds.MS.gene58612.t1;Parent=MS.gene58612.t1
Gene Sequence

>MS.gene58612

ATGGTGCTAATCCAGGGACCACAAGAGTGGTGGGAACCTTTAGGCTATTTGGCACCGGAGTTGCCTAGAACAGGAAGAGCATCTACGAGTTCAGACGTTTTTGCATTTGGTGCACTTCTGCTTGAGGTTGCTTGTGGGAGAAGGCCTATTGAGTCTAAGGCATTACAAGAAGAGTTAGTGTTTGTGGACTGGGTGTAG
Protein sequence

>MS.gene58612.t1

MVLIQGPQEWWEPLGYLAPELPRTGRASTSSDVFAFGALLLEVACGRRPIESKALQEELVFVDWV