AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene072276

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene072276.t1 MTR_8g013610 95.349 43 2 0 1 43 682 724 4.43e-22 87.4
MS.gene072276.t1 MTR_8g013620 88.372 43 5 0 1 43 641 683 1.30e-18 77.4
MS.gene072276.t1 MTR_8g013620 88.372 43 5 0 1 43 681 723 1.34e-18 77.4
MS.gene072276.t1 MTR_8g013560 88.372 43 5 0 1 43 684 726 3.67e-18 76.3
MS.gene072276.t1 MTR_8g013600 86.047 43 6 0 1 43 658 700 5.86e-18 75.9
MS.gene072276.t1 MTR_8g013580 83.721 43 7 0 1 43 686 728 7.84e-17 72.4
MS.gene072276.t1 MTR_7g056450 69.767 43 13 0 1 43 684 726 2.93e-16 70.9
MS.gene072276.t1 MTR_2g011230 72.093 43 12 0 1 43 691 733 3.23e-16 70.9
MS.gene072276.t1 MTR_7g056650 78.571 42 9 0 1 42 531 572 3.74e-16 70.5
MS.gene072276.t1 MTR_4g098890 62.745 51 19 0 1 51 1241 1291 3.76e-16 70.5
MS.gene072276.t1 MTR_7g056663 73.810 42 11 0 1 42 701 742 2.23e-15 68.6
MS.gene072276.t1 MTR_7g056640 76.190 42 10 0 1 42 692 733 7.33e-15 67.0
MS.gene072276.t1 MTR_7g056667 69.048 42 13 0 1 42 697 738 1.17e-14 66.2
MS.gene072276.t1 MTR_7g056623 73.810 42 11 0 1 42 650 691 1.78e-14 65.9
MS.gene072276.t1 MTR_2g011240 65.116 43 15 0 1 43 678 720 1.93e-14 65.9
MS.gene072276.t1 MTR_7g056680 73.810 42 11 0 1 42 672 713 2.00e-14 65.9
MS.gene072276.t1 MTR_7g056680 73.810 42 11 0 1 42 676 717 2.04e-14 65.5
MS.gene072276.t1 MTR_7g056680 73.810 42 11 0 1 42 677 718 2.04e-14 65.5
MS.gene072276.t1 MTR_7g056680 73.810 42 11 0 1 42 681 722 2.04e-14 65.5
MS.gene072276.t1 MTR_7g056680 73.810 42 11 0 1 42 516 557 2.62e-14 65.5
MS.gene072276.t1 MTR_2g011270 71.429 42 11 1 1 42 681 721 2.82e-14 65.1
MS.gene072276.t1 MTR_2g011340 71.429 42 11 1 1 42 697 737 2.82e-14 65.1
MS.gene072276.t1 MTR_2g011280 71.429 42 11 1 1 42 701 741 2.82e-14 65.1
MS.gene072276.t1 MTR_7g056590 71.429 42 12 0 1 42 538 579 7.69e-14 63.9
MS.gene072276.t1 MTR_7g056510 71.429 42 11 1 1 42 684 724 8.26e-14 63.9
MS.gene072276.t1 MTR_7g056430 71.429 42 11 1 1 42 1016 1056 1.03e-13 63.5
MS.gene072276.t1 MTR_7g056510 71.429 42 11 1 1 42 694 734 1.04e-13 63.5
MS.gene072276.t1 MTR_7g056420 71.429 42 11 1 1 42 1016 1056 1.23e-13 63.5
MS.gene072276.t1 MTR_0090s0020 58.696 46 19 0 2 47 674 719 3.14e-13 62.4
MS.gene072276.t1 MTR_8g442270 70.732 41 12 0 1 41 654 694 3.18e-13 62.4
MS.gene072276.t1 MTR_2g011210 74.419 43 10 1 1 43 702 743 3.18e-13 62.4
MS.gene072276.t1 MTR_7g056620 71.429 42 12 0 1 42 10 51 5.67e-13 59.3
MS.gene072276.t1 MTR_7g056647 61.905 42 16 0 1 42 707 748 1.01e-12 60.8
MS.gene072276.t1 MTR_7g056647 61.905 42 16 0 1 42 545 586 1.32e-12 60.5
MS.gene072276.t1 MTR_8g442310 65.854 41 14 0 1 41 610 650 1.86e-12 60.1
MS.gene072276.t1 MTR_0090s0020 54.000 50 19 1 2 47 674 723 2.89e-12 59.7
MS.gene072276.t1 MTR_0090s0020 59.524 42 17 0 2 43 674 715 2.89e-12 59.7
MS.gene072276.t1 MTR_8g051640 65.854 41 14 0 1 41 623 663 4.48e-12 58.9
MS.gene072276.t1 MTR_4g040480 62.791 43 15 1 1 43 687 728 6.45e-12 58.5
MS.gene072276.t1 MTR_4g081685 62.500 40 15 0 1 40 680 719 6.97e-12 58.5
MS.gene072276.t1 MTR_4g091570 72.093 43 11 1 1 43 930 971 7.87e-12 58.2
MS.gene072276.t1 MTR_4g081675 60.976 41 16 0 1 41 679 719 1.05e-11 57.8
MS.gene072276.t1 MTR_8g051600 65.854 41 14 0 1 41 649 689 2.13e-11 57.0
MS.gene072276.t1 MTR_2g011190 69.767 43 12 1 1 43 698 739 2.59e-11 57.0
MS.gene072276.t1 MTR_8g052350 65.854 41 14 0 1 41 1 41 2.65e-11 55.1
MS.gene072276.t1 MTR_8g052290 65.854 41 14 0 1 41 265 305 2.77e-11 56.6
MS.gene072276.t1 MTR_8g052513 65.854 41 14 0 1 41 638 678 2.82e-11 56.6
MS.gene072276.t1 MTR_8g052080 65.854 41 14 0 1 41 661 701 3.33e-11 56.6
MS.gene072276.t1 MTR_3g007650 63.415 41 15 0 1 41 700 740 4.56e-11 56.2
MS.gene072276.t1 MTR_8g442370 65.854 41 14 0 1 41 644 684 4.88e-11 56.2
MS.gene072276.t1 MTR_8g052050 63.415 41 15 0 1 41 660 700 5.08e-11 55.8
MS.gene072276.t1 MTR_8g052200 63.415 41 15 0 1 41 638 678 5.28e-11 55.8
MS.gene072276.t1 MTR_8g052060 65.854 41 14 0 1 41 617 657 5.59e-11 55.8
MS.gene072276.t1 MTR_8g052190 65.854 41 14 0 1 41 652 692 5.60e-11 55.8
MS.gene072276.t1 MTR_8g052190 65.854 41 14 0 1 41 653 693 5.60e-11 55.8
MS.gene072276.t1 MTR_8g052420 63.415 41 15 0 1 41 641 681 6.67e-11 55.8
MS.gene072276.t1 MTR_8g052570 65.854 41 14 0 1 41 238 278 8.08e-11 55.5
MS.gene072276.t1 MTR_8g052517 65.854 41 14 0 1 41 238 278 8.08e-11 55.5
MS.gene072276.t1 MTR_8g051850 63.415 41 15 0 1 41 121 161 8.47e-11 55.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene072276.t1 AT1G65790 61.905 42 16 0 1 42 694 735 9.06e-12 58.2
MS.gene072276.t1 AT1G65800 61.905 42 16 0 1 42 698 739 9.15e-12 58.2
MS.gene072276.t1 AT1G11330 58.140 43 18 0 1 43 697 739 1.12e-11 57.8
MS.gene072276.t1 AT1G11330 58.140 43 18 0 1 43 699 741 1.12e-11 57.8
MS.gene072276.t1 AT1G11330 59.524 42 17 0 1 42 699 740 1.40e-11 57.8
MS.gene072276.t1 AT1G61610 69.767 43 12 1 1 43 700 741 1.85e-11 57.4
MS.gene072276.t1 AT1G61610 71.429 42 11 1 1 42 700 740 2.34e-11 57.0
MS.gene072276.t1 AT1G61430 56.250 48 19 1 3 50 666 711 2.55e-11 57.0
MS.gene072276.t1 AT1G61430 56.250 48 19 1 3 50 669 714 2.60e-11 57.0
MS.gene072276.t1 AT1G61430 56.250 48 19 1 3 50 643 688 2.68e-11 57.0
MS.gene072276.t1 AT1G61430 56.250 48 19 1 3 50 643 688 2.68e-11 57.0
MS.gene072276.t1 AT1G61430 56.250 48 19 1 3 50 643 688 2.68e-11 57.0
MS.gene072276.t1 AT4G21390 63.265 49 17 1 1 49 704 751 2.90e-11 56.6
MS.gene072276.t1 AT4G21390 66.667 45 14 1 1 45 704 747 3.23e-11 56.6
MS.gene072276.t1 AT4G27290 63.415 41 15 0 1 41 640 680 4.91e-11 56.2
MS.gene072276.t1 AT4G27290 63.415 41 15 0 1 41 686 726 4.92e-11 56.2
MS.gene072276.t1 AT4G23150 65.000 40 14 0 1 40 511 550 8.64e-11 55.5

Find 15 sgRNAs with CRISPR-Local

Find 17 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATTTATGTGGGTCTTTC+CGG 0.214030 8.3:-75160356 None:intergenic
AATCAGATGTCTATAGCTTT+GGG 0.308301 8.3:+75160101 MS.gene072276:CDS
AAATCAGATGTCTATAGCTT+TGG 0.351682 8.3:+75160100 MS.gene072276:CDS
GAAGATACTCTTAGCCTTGT+AGG 0.393421 8.3:+75160178 MS.gene072276:CDS
ATTATTGGTTAAAATTTATG+TGG 0.439160 8.3:-75160366 None:intergenic
TATGTGGGTCTTTCCGGTGT+GGG 0.495791 8.3:-75160350 None:intergenic
ATTGTTAGCGGAAGAAGAAA+CGG 0.526990 8.3:+75160139 MS.gene072276:CDS
TTAGACTTACAAAGCCTACA+AGG 0.540512 8.3:-75160192 None:intergenic
CCGCCTGAATATGCAATGGA+GGG 0.545403 8.3:+75160064 None:intergenic
TTATTGGTTAAAATTTATGT+GGG 0.561682 8.3:-75160365 None:intergenic
CGCCTGAATATGCAATGGAG+GGG 0.588679 8.3:+75160065 None:intergenic
CTATTACTAGAGATTGTTAG+CGG 0.596276 8.3:+75160127 MS.gene072276:CDS
ATCAGATGTCTATAGCTTTG+GGG 0.603145 8.3:+75160102 MS.gene072276:CDS
GTCGGTGCTCATTCCCACAC+CGG 0.611831 8.3:+75160337 MS.gene072276:CDS
TTATGTGGGTCTTTCCGGTG+TGG 0.612424 8.3:-75160351 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CATAGTATGTAATAAAAGAA+TGG - chr8.3:75160223-75160242 None:intergenic 20.0%
!!! TGTTGTCTAAAATTTTGAGT+GGG + chr8.3:75160281-75160300 MS.gene072276:intron 25.0%
!!! TTGTTGTCTAAAATTTTGAG+TGG + chr8.3:75160280-75160299 MS.gene072276:intron 25.0%
AAAATTTATGTGGGTCTTTC+CGG - chr8.3:75160359-75160378 None:intergenic 30.0%
AAATCAGATGTCTATAGCTT+TGG + chr8.3:75160100-75160119 MS.gene072276:CDS 30.0%
AATCAGATGTCTATAGCTTT+GGG + chr8.3:75160101-75160120 MS.gene072276:CDS 30.0%
CTATTACTAGAGATTGTTAG+CGG + chr8.3:75160127-75160146 MS.gene072276:CDS 30.0%
TGGGTTTCGCTAATTTATTA+GGG + chr8.3:75160300-75160319 MS.gene072276:intron 30.0%
ATTGTTAGCGGAAGAAGAAA+CGG + chr8.3:75160139-75160158 MS.gene072276:CDS 35.0%
GTGGGTTTCGCTAATTTATT+AGG + chr8.3:75160299-75160318 MS.gene072276:intron 35.0%
TTAGACTTACAAAGCCTACA+AGG - chr8.3:75160195-75160214 None:intergenic 35.0%
! ATCAGATGTCTATAGCTTTG+GGG + chr8.3:75160102-75160121 MS.gene072276:CDS 35.0%
!! GAAGATACTCTTAGCCTTGT+AGG + chr8.3:75160178-75160197 MS.gene072276:CDS 40.0%
!!! AGGGTCACTTTTCTGAATGT+CGG + chr8.3:75160319-75160338 MS.gene072276:intron 40.0%
TATGTGGGTCTTTCCGGTGT+GGG - chr8.3:75160353-75160372 None:intergenic 50.0%
TTATGTGGGTCTTTCCGGTG+TGG - chr8.3:75160354-75160373 None:intergenic 50.0%
! GTCGGTGCTCATTCCCACAC+CGG + chr8.3:75160337-75160356 MS.gene072276:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 75160079 75160380 75160079 ID=MS.gene072276
chr8.3 mRNA 75160079 75160380 75160079 ID=MS.gene072276.t1;Parent=MS.gene072276
chr8.3 exon 75160079 75160204 75160079 ID=MS.gene072276.t1.exon1;Parent=MS.gene072276.t1
chr8.3 CDS 75160079 75160204 75160079 ID=cds.MS.gene072276.t1;Parent=MS.gene072276.t1
chr8.3 exon 75160321 75160380 75160321 ID=MS.gene072276.t1.exon2;Parent=MS.gene072276.t1
chr8.3 CDS 75160321 75160380 75160321 ID=cds.MS.gene072276.t1;Parent=MS.gene072276.t1
Gene Sequence

>MS.gene072276

ATGGAGGGGCTTTTCTCTGAAAAATCAGATGTCTATAGCTTTGGGGTTCTATTACTAGAGATTGTTAGCGGAAGAAGAAACGGTAGCTTTTCTCATCACGAAGATACTCTTAGCCTTGTAGGCTTTGTAAGTCTAAATACTCCATTCTTTTATTACATACTATGAGAAAAGAAATGTTAGTAATACACTTTCAACACTTCATTGTTGTCTAAAATTTTGAGTGGGTTTCGCTAATTTATTAGGGTCACTTTTCTGAATGTCGGTGCTCATTCCCACACCGGAAAGACCCACATAAATTTTAA
Protein sequence

>MS.gene072276.t1

MEGLFSEKSDVYSFGVLLLEIVSGRRNGSFSHHEDTLSLVGFGHFSECRCSFPHRKDPHKF