AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580025022.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025022.01.T01 MTR_5g021080 96.907 97 3 0 1 97 804 900 9.67e-58 191
MsG0580025022.01.T01 MTR_1g090680 38.272 81 50 0 1 81 1386 1466 6.06e-13 63.9
MsG0580025022.01.T01 MTR_7g015770 39.286 84 51 0 5 88 835 918 1.97e-12 62.4
MsG0580025022.01.T01 MTR_1g090673 42.188 64 37 0 21 84 1311 1374 2.57e-11 59.3
MsG0580025022.01.T01 MTR_1g090690 35.802 81 52 0 2 82 1454 1534 8.95e-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
MsG0580025022.01.T01 AT5G43470 42.056 107 60 1 4 110 801 905 1.91e-17 76.6
MsG0580025022.01.T01 AT5G43470 42.056 107 60 1 4 110 801 905 1.91e-17 76.6
MsG0580025022.01.T01 AT5G43470 42.056 107 60 1 4 110 801 905 1.91e-17 76.6
MsG0580025022.01.T01 AT5G43470 42.056 107 60 1 4 110 801 905 1.91e-17 76.6
MsG0580025022.01.T01 AT5G35450 44.944 89 49 0 4 92 792 880 8.10e-17 75.1
MsG0580025022.01.T01 AT5G35450 44.944 89 49 0 4 92 792 880 8.10e-17 75.1
MsG0580025022.01.T01 AT1G53350 43.529 85 48 0 4 88 799 883 5.09e-15 69.7
MsG0580025022.01.T01 AT5G48620 39.450 109 64 1 2 110 799 905 8.36e-14 66.2
MsG0580025022.01.T01 AT5G48620 39.450 109 64 1 2 110 799 905 8.36e-14 66.2
MsG0580025022.01.T01 AT5G48620 39.450 109 64 1 2 110 799 905 8.36e-14 66.2
MsG0580025022.01.T01 AT5G48620 39.450 109 64 1 2 110 799 905 8.36e-14 66.2
MsG0580025022.01.T01 AT5G48620 39.450 109 64 1 2 110 799 905 8.36e-14 66.2
MsG0580025022.01.T01 AT5G48620 39.450 109 64 1 2 110 799 905 8.36e-14 66.2
MsG0580025022.01.T01 AT1G58807 45.455 77 42 0 2 78 894 970 1.16e-13 65.9
MsG0580025022.01.T01 AT1G59124 45.455 77 42 0 2 78 894 970 1.16e-13 65.9
MsG0580025022.01.T01 AT1G59780 45.070 71 39 0 7 77 787 857 8.61e-12 60.8
MsG0580025022.01.T01 AT1G59780 45.070 71 39 0 7 77 782 852 9.12e-12 60.5

Find 17 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAAACTAAAATGCTTGTTT+TGG 0.247115 5:+12885833 None:intergenic
TCTGTTGTTGATTCGATAAT+TGG 0.256754 5:-12886139 None:intergenic
GTGATATCCTTCAGTCCTTC+TGG 0.310871 5:-12886029 None:intergenic
AACAACAGACATTTATCAAT+TGG 0.384067 5:+12886153 MsG0580025022.01.T01:CDS
GCTCACTCTTCTGAAAGAAT+TGG 0.397733 5:+12885926 MsG0580025022.01.T01:CDS
AATGCCAATGCTTGAGTACA+TGG 0.476489 5:+12885974 MsG0580025022.01.T01:CDS
CACTCTTCTGAAAGAATTGG+AGG 0.486252 5:+12885929 MsG0580025022.01.T01:CDS
GGAATGGAAAGTTGAGGAAA+AGG 0.498630 5:+12885950 MsG0580025022.01.T01:CDS
TTCTGAAAGAATTGGAGGAA+TGG 0.506890 5:+12885934 MsG0580025022.01.T01:CDS
GAATTGAGTTTCAGTGCTGA+AGG 0.518132 5:+12885879 MsG0580025022.01.T01:CDS
AAAGATTCCAGAAGGACTGA+AGG 0.550687 5:+12886022 MsG0580025022.01.T01:CDS
ATAACCATGTACTCAAGCAT+TGG 0.565523 5:-12885978 None:intergenic
AGTCTATGTTCAAAATCTAC+CGG 0.582883 5:-12886083 None:intergenic
AATTGAGTTTCAGTGCTGAA+GGG 0.613970 5:+12885880 MsG0580025022.01.T01:CDS
ATTGGAGGAATGGAAAGTTG+AGG 0.626866 5:+12885944 MsG0580025022.01.T01:CDS
AAGCTGAGAAAGATTCCAGA+AGG 0.631636 5:+12886014 MsG0580025022.01.T01:CDS
TTGAGTACATGGTTATTGAT+CGG 0.651662 5:+12885985 MsG0580025022.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTGAAGAAACTAAAAATTAC+AGG + Chr5:12886056-12886075 MsG0580025022.01.T01:CDS 20.0%
! AACAACAGACATTTATCAAT+TGG + Chr5:12886153-12886172 MsG0580025022.01.T01:CDS 25.0%
!! TAGATTTTGAACATAGACTT+CGG + Chr5:12886087-12886106 MsG0580025022.01.T01:CDS 25.0%
AGTCTATGTTCAAAATCTAC+CGG - Chr5:12886086-12886105 None:intergenic 30.0%
TTGAGTACATGGTTATTGAT+CGG + Chr5:12885985-12886004 MsG0580025022.01.T01:CDS 30.0%
! TTTCACAATTGCATGTTTTG+CGG + Chr5:12885904-12885923 MsG0580025022.01.T01:CDS 30.0%
!! TCTGTTGTTGATTCGATAAT+TGG - Chr5:12886142-12886161 None:intergenic 30.0%
ACTAAAAATTACAGGCATGC+CGG + Chr5:12886064-12886083 MsG0580025022.01.T01:CDS 35.0%
ATAACCATGTACTCAAGCAT+TGG - Chr5:12885981-12886000 None:intergenic 35.0%
GGGTAAAAAGGCTTACAATT+GGG + Chr5:12885854-12885873 MsG0580025022.01.T01:CDS 35.0%
TGGGTAAAAAGGCTTACAAT+TGG + Chr5:12885853-12885872 MsG0580025022.01.T01:CDS 35.0%
! AATTGAGTTTCAGTGCTGAA+GGG + Chr5:12885880-12885899 MsG0580025022.01.T01:CDS 35.0%
! TTCTGAAAGAATTGGAGGAA+TGG + Chr5:12885934-12885953 MsG0580025022.01.T01:CDS 35.0%
AAAGATTCCAGAAGGACTGA+AGG + Chr5:12886022-12886041 MsG0580025022.01.T01:CDS 40.0%
AAGCTGAGAAAGATTCCAGA+AGG + Chr5:12886014-12886033 MsG0580025022.01.T01:CDS 40.0%
AATGCCAATGCTTGAGTACA+TGG + Chr5:12885974-12885993 MsG0580025022.01.T01:CDS 40.0%
ATTGGAGGAATGGAAAGTTG+AGG + Chr5:12885944-12885963 MsG0580025022.01.T01:CDS 40.0%
GGAATGGAAAGTTGAGGAAA+AGG + Chr5:12885950-12885969 MsG0580025022.01.T01:CDS 40.0%
! CACTCTTCTGAAAGAATTGG+AGG + Chr5:12885929-12885948 MsG0580025022.01.T01:CDS 40.0%
! GAATTGAGTTTCAGTGCTGA+AGG + Chr5:12885879-12885898 MsG0580025022.01.T01:CDS 40.0%
! GCTCACTCTTCTGAAAGAAT+TGG + Chr5:12885926-12885945 MsG0580025022.01.T01:CDS 40.0%
GTGATATCCTTCAGTCCTTC+TGG - Chr5:12886032-12886051 None:intergenic 45.0%
Chromosome Type Strat End Strand Name
Chr5 gene 12885843 12886178 12885843 ID=MsG0580025022.01;Name=MsG0580025022.01
Chr5 mRNA 12885843 12886178 12885843 ID=MsG0580025022.01.T01;Parent=MsG0580025022.01;Name=MsG0580025022.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|111
Chr5 exon 12885843 12886178 12885843 ID=MsG0580025022.01.T01:exon:3339;Parent=MsG0580025022.01.T01
Chr5 CDS 12885843 12886178 12885843 ID=MsG0580025022.01.T01:cds;Parent=MsG0580025022.01.T01
Gene Sequence

>MsG0580025022.01.T01

ATGCTTGTTTTGGGTAAAAAGGCTTACAATTGGGCAGAATTGAGTTTCAGTGCTGAAGGGTTTTCACAATTGCATGTTTTGCGGCTCACTCTTCTGAAAGAATTGGAGGAATGGAAAGTTGAGGAAAAGGCAATGCCAATGCTTGAGTACATGGTTATTGATCGGTGCGAGAAGCTGAGAAAGATTCCAGAAGGACTGAAGGATATCACTTCTTTGAAGAAACTAAAAATTACAGGCATGCCGGTAGATTTTGAACATAGACTTCGGACTAAAGATTGCTTGAGTTCAAAAATACTCCAATTATCGAATCAACAACAGACATTTATCAATTGGTAA

Protein sequence

>MsG0580025022.01.T01

MLVLGKKAYNWAELSFSAEGFSQLHVLRLTLLKELEEWKVEEKAMPMLEYMVIDRCEKLRKIPEGLKDITSLKKLKITGMPVDFEHRLRTKDCLSSKILQLSNQQQTFINW*