AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017202.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017202.01.T01 MTR_3g102830 99.408 169 1 0 1 169 759 927 1.57e-111 338
MsG0380017202.01.T01 MTR_8g100040 97.633 169 4 0 1 169 758 926 3.51e-110 334
MsG0380017202.01.T01 MTR_3g498725 91.716 169 14 0 1 169 754 922 9.77e-103 315
MsG0380017202.01.T01 MTR_3g461000 59.355 155 53 2 1 154 613 758 1.47e-53 181
MsG0380017202.01.T01 MTR_3g098310 49.032 155 76 3 1 154 801 953 8.12e-43 152
MsG0380017202.01.T01 MTR_3g106160 40.690 145 81 1 1 145 810 949 1.39e-26 105
MsG0380017202.01.T01 MTR_6g013660 38.621 145 83 1 1 145 798 936 5.46e-26 103
MsG0380017202.01.T01 MTR_7g012820 35.862 145 87 1 1 145 802 940 2.03e-23 96.3
MsG0380017202.01.T01 MTR_7g012820 35.862 145 87 1 1 145 731 869 2.15e-23 96.3
MsG0380017202.01.T01 MTR_4g109450 31.788 151 89 2 1 149 720 858 1.67e-20 87.8
MsG0380017202.01.T01 MTR_2g006950 32.026 153 87 3 1 152 419 555 2.30e-17 79.0
MsG0380017202.01.T01 MTR_7g028970 34.194 155 85 4 1 152 720 860 3.21e-17 78.6
MsG0380017202.01.T01 MTR_1g076440 91.892 37 1 1 133 169 276 310 1.44e-13 67.4
MsG0380017202.01.T01 MTR_2g099075 26.144 153 101 2 1 152 315 456 1.10e-12 65.1
MsG0380017202.01.T01 MTR_4g109450 31.481 108 60 2 1 106 720 815 1.46e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017202.01.T01 AT5G50920 89.595 173 14 1 1 169 756 928 7.59e-100 307
MsG0380017202.01.T01 AT3G48870 87.975 158 19 0 1 158 746 903 1.48e-91 285
MsG0380017202.01.T01 AT3G48870 87.975 158 19 0 1 158 777 934 2.16e-91 285
MsG0380017202.01.T01 AT3G48870 87.975 158 19 0 1 158 777 934 2.16e-91 285
MsG0380017202.01.T01 AT3G48870 87.975 158 19 0 1 158 777 934 2.16e-91 285
MsG0380017202.01.T01 AT5G51070 49.333 150 75 1 1 149 775 924 1.38e-41 148
MsG0380017202.01.T01 AT2G25140 35.802 162 96 2 1 159 801 957 1.97e-24 99.4
MsG0380017202.01.T01 AT5G15450 34.483 145 88 1 1 145 796 933 2.32e-22 93.2
MsG0380017202.01.T01 AT1G74310 34.513 113 74 0 34 146 740 852 4.77e-19 84.0
MsG0380017202.01.T01 AT1G74310 35.616 73 47 0 34 106 740 812 9.55e-11 59.7

Find 40 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCGGTGACAGAGAGATTT+AGG 0.140708 3:+93247819 MsG0380017202.01.T01:CDS
AGAGACTCGGGCAATGAATT+TGG 0.261614 3:-93248031 None:intergenic
AAGAGCTATAATGCGACTTT+TGG 0.284061 3:+93247895 MsG0380017202.01.T01:CDS
CACCGAGAGCTCAATCTCTT+TGG 0.293521 3:-93247804 None:intergenic
CGCATTATAGCTCTTCTTAG+AGG 0.323792 3:-93247887 None:intergenic
TTTCAGGCAACTTACAAAAC+TGG 0.356617 3:+93247727 MsG0380017202.01.T01:CDS
CTCGGTGACAGAGAGATTTA+GGG 0.386306 3:+93247820 MsG0380017202.01.T01:CDS
TATAGCTCTTCTTAGAGGTC+TGG 0.445858 3:-93247882 None:intergenic
TTAGGCCAGAGTTCTTGAAT+AGG 0.449813 3:+93247687 MsG0380017202.01.T01:CDS
AGAGAGATTTAGGGAGAGAG+TGG 0.450512 3:+93247829 MsG0380017202.01.T01:CDS
GCCAGAGTTCTTGAATAGGC+TGG 0.465682 3:+93247691 MsG0380017202.01.T01:CDS
AGGAGCTGAAGCAATACTTT+AGG 0.471670 3:+93247669 MsG0380017202.01.T01:CDS
AACCAAAGAGATTGAGCTCT+CGG 0.480234 3:+93247802 MsG0380017202.01.T01:CDS
ACTTACAAAACTGGAGGTTA+AGG 0.491625 3:+93247736 MsG0380017202.01.T01:CDS
AGAGGGTGACTCTGTTATAG+TGG 0.499343 3:+93247958 MsG0380017202.01.T01:CDS
GAAGGTTATAATCCTAGTTA+TGG 0.501031 3:+93247857 MsG0380017202.01.T01:CDS
CTTATAATGACATCAAATGT+TGG 0.515383 3:+93247548 None:intergenic
AGAGGTCTGGCACCATAACT+AGG 0.516524 3:-93247869 None:intergenic
AGGGAGAGAGTGGTTGACGA+AGG 0.536287 3:+93247839 MsG0380017202.01.T01:CDS
GGAAGCAGTGTGATTGAGAA+AGG 0.546826 3:+93247569 MsG0380017202.01.T01:CDS
TCCAGCCTATTCAAGAACTC+TGG 0.552565 3:-93247692 None:intergenic
AAAGTATTGCTTCAGCTCCT+CGG 0.566849 3:-93247666 None:intergenic
TTATAACCGAATCAAAAGCT+TGG 0.568690 3:+93247640 MsG0380017202.01.T01:CDS
TGACCTTGACTATGATGAGA+AGG 0.570760 3:+93247610 MsG0380017202.01.T01:CDS
GAGAAAGGAGGCCGTCGCAT+AGG 0.571102 3:+93247584 MsG0380017202.01.T01:CDS
GCTTGCTAGAGAGATTAAAG+AGG 0.579607 3:+93247940 MsG0380017202.01.T01:CDS
GATAGCTGATATAATGCTGA+AGG 0.585043 3:+93247760 MsG0380017202.01.T01:CDS
GGAAATGTGATTGTGCTCAA+TGG 0.597832 3:+93247995 MsG0380017202.01.T01:CDS
CAGGCAACTTACAAAACTGG+AGG 0.601353 3:+93247730 MsG0380017202.01.T01:CDS
ATGTTACACAGGAAGAGACT+CGG 0.602576 3:-93248044 None:intergenic
CTTGCTAGAGAGATTAAAGA+GGG 0.623990 3:+93247941 MsG0380017202.01.T01:CDS
ATTGTGCTCAATGGTAGTAG+TGG 0.625985 3:+93248004 MsG0380017202.01.T01:CDS
TGTTACACAGGAAGAGACTC+GGG 0.631623 3:-93248043 None:intergenic
TGTCCTTCTCATCATAGTCA+AGG 0.633612 3:-93247613 None:intergenic
ACAAGTACACAATGTTACAC+AGG 0.636724 3:-93248055 None:intergenic
AGCTGATATAATGCTGAAGG+AGG 0.638939 3:+93247763 MsG0380017202.01.T01:CDS
CAAGGTCAAATCCTATGCGA+CGG 0.639546 3:-93247595 None:intergenic
AATCAAAAGCTTGGTGACCG+AGG 0.652415 3:+93247649 MsG0380017202.01.T01:CDS
ATAGTGGATGCTGATTCTGA+TGG 0.662089 3:+93247974 MsG0380017202.01.T01:CDS
AGCAGTGTGATTGAGAAAGG+AGG 0.675394 3:+93247572 MsG0380017202.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GAAGGTTATAATCCTAGTTA+TGG + Chr3:93247857-93247876 MsG0380017202.01.T01:CDS 30.0%
TTATAACCGAATCAAAAGCT+TGG + Chr3:93247640-93247659 MsG0380017202.01.T01:CDS 30.0%
! TGGATGAAATGATTGTTTTC+AGG + Chr3:93247711-93247730 MsG0380017202.01.T01:CDS 30.0%
ACTTACAAAACTGGAGGTTA+AGG + Chr3:93247736-93247755 MsG0380017202.01.T01:CDS 35.0%
CTTGCTAGAGAGATTAAAGA+GGG + Chr3:93247941-93247960 MsG0380017202.01.T01:CDS 35.0%
GATAGCTGATATAATGCTGA+AGG + Chr3:93247760-93247779 MsG0380017202.01.T01:CDS 35.0%
TTTCAGGCAACTTACAAAAC+TGG + Chr3:93247727-93247746 MsG0380017202.01.T01:CDS 35.0%
! AAGAGCTATAATGCGACTTT+TGG + Chr3:93247895-93247914 MsG0380017202.01.T01:CDS 35.0%
AACCAAAGAGATTGAGCTCT+CGG + Chr3:93247802-93247821 MsG0380017202.01.T01:CDS 40.0%
AGCTGATATAATGCTGAAGG+AGG + Chr3:93247763-93247782 MsG0380017202.01.T01:CDS 40.0%
AGGAGCTGAAGCAATACTTT+AGG + Chr3:93247669-93247688 MsG0380017202.01.T01:CDS 40.0%
ATTGTGCTCAATGGTAGTAG+TGG + Chr3:93248004-93248023 MsG0380017202.01.T01:CDS 40.0%
CGCATTATAGCTCTTCTTAG+AGG - Chr3:93247890-93247909 None:intergenic 40.0%
GGAAATGTGATTGTGCTCAA+TGG + Chr3:93247995-93248014 MsG0380017202.01.T01:CDS 40.0%
TATAGCTCTTCTTAGAGGTC+TGG - Chr3:93247885-93247904 None:intergenic 40.0%
TGACCTTGACTATGATGAGA+AGG + Chr3:93247610-93247629 MsG0380017202.01.T01:CDS 40.0%
TGTCCTTCTCATCATAGTCA+AGG - Chr3:93247616-93247635 None:intergenic 40.0%
TTAGGCCAGAGTTCTTGAAT+AGG + Chr3:93247687-93247706 MsG0380017202.01.T01:CDS 40.0%
! GCTTGCTAGAGAGATTAAAG+AGG + Chr3:93247940-93247959 MsG0380017202.01.T01:CDS 40.0%
!! AAAGTATTGCTTCAGCTCCT+CGG - Chr3:93247669-93247688 None:intergenic 40.0%
!! ATAGTGGATGCTGATTCTGA+TGG + Chr3:93247974-93247993 MsG0380017202.01.T01:CDS 40.0%
AGAGACTCGGGCAATGAATT+TGG - Chr3:93248034-93248053 None:intergenic 45.0%
AGAGAGATTTAGGGAGAGAG+TGG + Chr3:93247829-93247848 MsG0380017202.01.T01:CDS 45.0%
AGAGGGTGACTCTGTTATAG+TGG + Chr3:93247958-93247977 MsG0380017202.01.T01:CDS 45.0%
AGCAGTGTGATTGAGAAAGG+AGG + Chr3:93247572-93247591 MsG0380017202.01.T01:CDS 45.0%
CAAGGTCAAATCCTATGCGA+CGG - Chr3:93247598-93247617 None:intergenic 45.0%
CAGGCAACTTACAAAACTGG+AGG + Chr3:93247730-93247749 MsG0380017202.01.T01:CDS 45.0%
CTCGGTGACAGAGAGATTTA+GGG + Chr3:93247820-93247839 MsG0380017202.01.T01:CDS 45.0%
GGAAGCAGTGTGATTGAGAA+AGG + Chr3:93247569-93247588 MsG0380017202.01.T01:CDS 45.0%
TCCAGCCTATTCAAGAACTC+TGG - Chr3:93247695-93247714 None:intergenic 45.0%
TCTCGGTGACAGAGAGATTT+AGG + Chr3:93247819-93247838 MsG0380017202.01.T01:CDS 45.0%
! AATCAAAAGCTTGGTGACCG+AGG + Chr3:93247649-93247668 MsG0380017202.01.T01:CDS 45.0%
!! CGGTCACCAAGCTTTTGATT+CGG - Chr3:93247649-93247668 None:intergenic 45.0%
AGAGGTCTGGCACCATAACT+AGG - Chr3:93247872-93247891 None:intergenic 50.0%
CACCGAGAGCTCAATCTCTT+TGG - Chr3:93247807-93247826 None:intergenic 50.0%
GCCAGAGTTCTTGAATAGGC+TGG + Chr3:93247691-93247710 MsG0380017202.01.T01:CDS 50.0%
!! GCGACTTTTGGAAGACAGCA+TGG + Chr3:93247907-93247926 MsG0380017202.01.T01:CDS 50.0%
AGGGAGAGAGTGGTTGACGA+AGG + Chr3:93247839-93247858 MsG0380017202.01.T01:CDS 55.0%
GAGAAAGGAGGCCGTCGCAT+AGG + Chr3:93247584-93247603 MsG0380017202.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 93247554 93248063 93247554 ID=MsG0380017202.01;Name=MsG0380017202.01
Chr3 mRNA 93247554 93248063 93247554 ID=MsG0380017202.01.T01;Parent=MsG0380017202.01;Name=MsG0380017202.01.T01;_AED=0.45;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|169
Chr3 exon 93247554 93248063 93247554 ID=MsG0380017202.01.T01:exon:31072;Parent=MsG0380017202.01.T01
Chr3 CDS 93247554 93248063 93247554 ID=MsG0380017202.01.T01:cds;Parent=MsG0380017202.01.T01
Gene Sequence

>MsG0380017202.01.T01

ATGACATCAAATGTTGGAAGCAGTGTGATTGAGAAAGGAGGCCGTCGCATAGGATTTGACCTTGACTATGATGAGAAGGACAGCAGTTATAACCGAATCAAAAGCTTGGTGACCGAGGAGCTGAAGCAATACTTTAGGCCAGAGTTCTTGAATAGGCTGGATGAAATGATTGTTTTCAGGCAACTTACAAAACTGGAGGTTAAGGAGATAGCTGATATAATGCTGAAGGAGGTGTTCGAGAGACTGAAAACCAAAGAGATTGAGCTCTCGGTGACAGAGAGATTTAGGGAGAGAGTGGTTGACGAAGGTTATAATCCTAGTTATGGTGCCAGACCTCTAAGAAGAGCTATAATGCGACTTTTGGAAGACAGCATGGCTGAGAAGATGCTTGCTAGAGAGATTAAAGAGGGTGACTCTGTTATAGTGGATGCTGATTCTGATGGAAATGTGATTGTGCTCAATGGTAGTAGTGGTGCTCCAAATTCATTGCCCGAGTCTCTTCCTGTGTAA

Protein sequence

>MsG0380017202.01.T01

MTSNVGSSVIEKGGRRIGFDLDYDEKDSSYNRIKSLVTEELKQYFRPEFLNRLDEMIVFRQLTKLEVKEIADIMLKEVFERLKTKEIELSVTERFRERVVDEGYNPSYGARPLRRAIMRLLEDSMAEKMLAREIKEGDSVIVDADSDGNVIVLNGSSGAPNSLPESLPV*