AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380018009.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380018009.01.T01 MTR_3g117120 97.419 155 3 1 1 154 1 155 1.77e-106 300
MsG0380018009.01.T01 MTR_4g070860 71.895 153 39 1 1 149 1 153 1.18e-64 194
MsG0380018009.01.T01 MTR_1g022495 61.491 161 50 4 1 151 1 159 4.93e-57 176
MsG0380018009.01.T01 MTR_8g086020 53.416 161 67 5 1 154 1 160 2.28e-46 148
MsG0380018009.01.T01 MTR_3g112220 63.291 79 29 0 27 105 1 79 3.01e-29 103
MsG0380018009.01.T01 MTR_1g087040 44.545 110 58 1 1 110 1 107 5.70e-25 94.0
MsG0380018009.01.T01 MTR_6g016375 44.118 102 47 2 26 124 86 180 4.23e-18 77.4
MsG0380018009.01.T01 MTR_8g015250 50.685 73 36 0 26 98 70 142 3.35e-17 74.7
MsG0380018009.01.T01 MTR_7g029400 44.444 99 51 2 1 98 57 152 3.44e-17 74.7
MsG0380018009.01.T01 MTR_7g017880 51.250 80 39 0 19 98 76 155 5.84e-17 74.3
MsG0380018009.01.T01 MTR_4g097440 39.091 110 60 1 7 109 45 154 8.42e-16 70.9
MsG0380018009.01.T01 MTR_5g015090 41.053 95 48 1 27 121 58 144 2.69e-14 66.6
MsG0380018009.01.T01 MTR_7g109510 45.000 120 60 2 27 146 19 132 5.93e-13 62.4
MsG0380018009.01.T01 MTR_3g109310 34.259 108 67 1 6 109 98 205 1.50e-12 63.9
MsG0380018009.01.T01 MTR_8g070820 36.735 98 58 2 24 118 300 396 3.81e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380018009.01.T01 AT1G75390 53.459 159 58 4 2 147 9 164 2.83e-48 154
MsG0380018009.01.T01 AT4G34590 57.143 133 47 2 26 148 23 155 5.19e-44 142
MsG0380018009.01.T01 AT2G18160 47.020 151 56 5 22 151 23 170 7.83e-37 125
MsG0380018009.01.T01 AT1G75390 60.825 97 34 2 2 94 9 105 1.21e-32 112
MsG0380018009.01.T01 AT3G62420 44.526 137 75 1 13 149 8 143 1.29e-30 108
MsG0380018009.01.T01 AT2G04038 48.837 86 41 1 16 98 57 142 4.39e-18 76.6
MsG0380018009.01.T01 AT5G15830 34.932 146 79 3 9 154 55 184 8.81e-18 76.3
MsG0380018009.01.T01 AT1G13600 45.361 97 48 2 16 107 70 166 1.16e-16 73.6
MsG0380018009.01.T01 AT3G30530 52.055 73 35 0 26 98 77 149 2.79e-16 72.0
MsG0380018009.01.T01 AT5G38800 47.500 80 42 0 19 98 61 140 1.48e-15 70.1
MsG0380018009.01.T01 AT5G49450 36.190 105 64 1 27 128 13 117 1.96e-12 61.2
MsG0380018009.01.T01 AT4G37730 45.000 80 37 1 26 98 193 272 4.52e-12 62.8
MsG0380018009.01.T01 AT2G22850 37.079 89 56 0 23 111 122 210 2.78e-11 59.7
MsG0380018009.01.T01 AT2G22850 37.079 89 56 0 23 111 122 210 2.78e-11 59.7
MsG0380018009.01.T01 AT3G49760 55.814 43 19 0 28 70 70 112 4.40e-11 58.2
MsG0380018009.01.T01 AT1G68880 38.554 83 51 0 12 94 29 111 4.49e-11 57.8

Find 21 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTCCTCTGAACCTGAATT+TGG 0.134136 3:-103279693 None:intergenic
CTTCAACAACCCTTTGAATA+TGG 0.147562 3:+103280037 MsG0380018009.01.T01:CDS
CCTCACAACTCAACGATTCT+TGG 0.288929 3:+103279875 MsG0380018009.01.T01:CDS
TGTTCAACACTTCCAAATTC+AGG 0.300497 3:+103279681 MsG0380018009.01.T01:CDS
CTTGGATGATCTTGCTGTTC+AGG 0.305122 3:+103279806 MsG0380018009.01.T01:CDS
TCTTCAAGTGGAACATCTTC+AGG 0.306987 3:+103279657 MsG0380018009.01.T01:CDS
TTCAACAACCCTTTGAATAT+GGG 0.356244 3:+103280038 MsG0380018009.01.T01:CDS
TTGTCATTATTATTATCAAC+AGG 0.406404 3:-103280011 None:intergenic
TTATTTGAACCAACCAATCA+TGG 0.433242 3:+103280061 MsG0380018009.01.T01:CDS
TTCAAATAACCCATATTCAA+AGG 0.450188 3:-103280047 None:intergenic
GAGATCTTCTTGCTGATTCG+CGG 0.468319 3:-103279764 None:intergenic
ATATCTGCAGAAGCCATGAT+TGG 0.469872 3:-103280074 None:intergenic
GGAAGATTTGATGCTTCTGA+TGG 0.470481 3:+103279710 MsG0380018009.01.T01:CDS
TCAAATAACCCATATTCAAA+GGG 0.472163 3:-103280046 None:intergenic
CTGTTCAGGTGAGTCAACTA+AGG 0.511341 3:+103279820 MsG0380018009.01.T01:CDS
CTGCAGAAGCCATGATTGGT+TGG 0.535667 3:-103280070 None:intergenic
AACTTCATGAATGTTGCAAA+TGG 0.546215 3:+103279978 MsG0380018009.01.T01:CDS
TCTCACATGGCTTCTTCAAG+TGG 0.568523 3:+103279645 None:intergenic
ACTTCCAAATTCAGGTTCAG+AGG 0.572504 3:+103279689 MsG0380018009.01.T01:CDS
CAGCAAGAAGATCTCGAATG+AGG 0.587735 3:+103279772 MsG0380018009.01.T01:CDS
CCAAGAATCGTTGAGTTGTG+AGG 0.599678 3:-103279875 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTGTCATTATTATTATCAAC+AGG - Chr3:103280014-103280033 None:intergenic 20.0%
! TCAAATAACCCATATTCAAA+GGG - Chr3:103280049-103280068 None:intergenic 25.0%
! TTCAAATAACCCATATTCAA+AGG - Chr3:103280050-103280069 None:intergenic 25.0%
AACTTCATGAATGTTGCAAA+TGG + Chr3:103279978-103279997 MsG0380018009.01.T01:CDS 30.0%
AATGAGGAAACAAAAACACT+TGG + Chr3:103279788-103279807 MsG0380018009.01.T01:CDS 30.0%
TTATTTGAACCAACCAATCA+TGG + Chr3:103280061-103280080 MsG0380018009.01.T01:CDS 30.0%
TTCAACAACCCTTTGAATAT+GGG + Chr3:103280038-103280057 MsG0380018009.01.T01:CDS 30.0%
CTTCAACAACCCTTTGAATA+TGG + Chr3:103280037-103280056 MsG0380018009.01.T01:CDS 35.0%
TGTTCAACACTTCCAAATTC+AGG + Chr3:103279681-103279700 MsG0380018009.01.T01:CDS 35.0%
ATATCTGCAGAAGCCATGAT+TGG - Chr3:103280077-103280096 None:intergenic 40.0%
GGAAGATTTGATGCTTCTGA+TGG + Chr3:103279710-103279729 MsG0380018009.01.T01:CDS 40.0%
TCTTCAAGTGGAACATCTTC+AGG + Chr3:103279657-103279676 MsG0380018009.01.T01:CDS 40.0%
TCTTCCTCTGAACCTGAATT+TGG - Chr3:103279696-103279715 None:intergenic 40.0%
! ACTTCCAAATTCAGGTTCAG+AGG + Chr3:103279689-103279708 MsG0380018009.01.T01:CDS 40.0%
CAGCAAGAAGATCTCGAATG+AGG + Chr3:103279772-103279791 MsG0380018009.01.T01:CDS 45.0%
CCTCACAACTCAACGATTCT+TGG + Chr3:103279875-103279894 MsG0380018009.01.T01:CDS 45.0%
CTGTTCAGGTGAGTCAACTA+AGG + Chr3:103279820-103279839 MsG0380018009.01.T01:CDS 45.0%
! CCAAGAATCGTTGAGTTGTG+AGG - Chr3:103279878-103279897 None:intergenic 45.0%
!! CTTGGATGATCTTGCTGTTC+AGG + Chr3:103279806-103279825 MsG0380018009.01.T01:CDS 45.0%
!! GAGATCTTCTTGCTGATTCG+CGG - Chr3:103279767-103279786 None:intergenic 45.0%
CTGCAGAAGCCATGATTGGT+TGG - Chr3:103280073-103280092 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr3 gene 103279651 103280115 103279651 ID=MsG0380018009.01;Name=MsG0380018009.01
Chr3 mRNA 103279651 103280115 103279651 ID=MsG0380018009.01.T01;Parent=MsG0380018009.01;Name=MsG0380018009.01.T01;_AED=0.39;_eAED=0.39;_QI=0|-1|0|1|-1|1|1|0|154
Chr3 exon 103279651 103280115 103279651 ID=MsG0380018009.01.T01:exon:6309;Parent=MsG0380018009.01.T01
Chr3 CDS 103279651 103280115 103279651 ID=MsG0380018009.01.T01:cds;Parent=MsG0380018009.01.T01
Gene Sequence

>MsG0380018009.01.T01

ATGGCTTCTTCAAGTGGAACATCTTCAGGCTGTTCAACACTTCCAAATTCAGGTTCAGAGGAAGATTTGATGCTTCTGATGGATCAAAGAAAAAGAAAGAGAATGATATCAAACCGCGAATCAGCAAGAAGATCTCGAATGAGGAAACAAAAACACTTGGATGATCTTGCTGTTCAGGTGAGTCAACTAAGGAATGAGAATCAACAGATTCTAACTTCAGTGAACCTCACAACTCAACGATTCTTGGCTGTTGAATCTGAAAACTCTGTGCTTAGAGCTCAACTGAATGAACTCAACAGCAGATTTGAGTCTTTGAATGAGATCATCAACTTCATGAATGTTGCAAATGGTGTTTTTGAACCTGTTGATAATAATAATGACAATTACTTCAACAACCCTTTGAATATGGGTTATTTGAACCAACCAATCATGGCTTCTGCAGATATGAACATGATACATTATTGA

Protein sequence

>MsG0380018009.01.T01

MASSSGTSSGCSTLPNSGSEEDLMLLMDQRKRKRMISNRESARRSRMRKQKHLDDLAVQVSQLRNENQQILTSVNLTTQRFLAVESENSVLRAQLNELNSRFESLNEIINFMNVANGVFEPVDNNNDNYFNNPLNMGYLNQPIMASADMNMIHY*