AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480023187.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023187.01.T01 MTR_8g088720 95.890 146 6 0 1 146 1 146 2.49e-103 292
MsG0480023187.01.T01 MTR_2g006290 64.000 150 43 3 4 146 3 148 7.05e-62 187
MsG0480023187.01.T01 MTR_1g112030 55.102 147 59 5 4 147 18 160 1.15e-49 157
MsG0480023187.01.T01 MTR_1g112030 55.102 147 59 5 4 147 14 156 1.20e-49 157
MsG0480023187.01.T01 MTR_2g086510 61.290 124 46 2 25 147 33 155 2.94e-49 155
MsG0480023187.01.T01 MTR_1g112050 55.102 147 63 3 1 146 9 153 3.08e-48 153
MsG0480023187.01.T01 MTR_4g053120 56.618 136 52 3 19 147 20 155 8.86e-48 152
MsG0480023187.01.T01 MTR_5g006320 36.000 100 63 1 48 147 46 144 8.20e-16 70.5
MsG0480023187.01.T01 MTR_4g098490 36.145 83 53 0 66 148 78 160 1.29e-15 70.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023187.01.T01 AT1G60950 63.265 147 49 3 1 144 1 145 4.84e-63 190
MsG0480023187.01.T01 AT1G10960 60.667 150 54 3 1 147 1 148 4.64e-58 178
MsG0480023187.01.T01 AT2G27510 50.980 153 65 4 5 147 3 155 1.33e-44 144
MsG0480023187.01.T01 AT5G10000 42.424 132 72 3 19 147 18 148 1.39e-30 108
MsG0480023187.01.T01 AT1G32550 39.759 83 50 0 66 148 73 155 4.02e-16 72.0
MsG0480023187.01.T01 AT4G14890 34.228 149 81 4 3 147 10 145 6.94e-15 68.2
MsG0480023187.01.T01 AT1G32550 34.043 94 46 2 71 148 75 168 1.88e-11 59.7

Find 55 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACGTGGGTCAGACTTTATT+TGG 0.300570 4:-81985146 MsG0480023187.01.T01:CDS
CCACGTTAGGGAATGCTGTT+AGG 0.301806 4:+81985162 None:intergenic
GTAAGTTCTTTAGTTCCATC+TGG 0.311839 4:+81985059 None:intergenic
GCTGTTAGGGTTGTGTTCAT+TGG 0.358114 4:+81985176 None:intergenic
ACCACCACAGCAGCCCTATC+AGG 0.384793 4:-81985233 MsG0480023187.01.T01:CDS
TGCTCACCATGGTTCCTGAT+AGG 0.397541 4:+81985219 None:intergenic
TGTGCTGGAAAAGTTGTAGA+AGG 0.411785 4:-81984948 MsG0480023187.01.T01:CDS
AATAAAGTCTGACCCACGTT+AGG 0.420347 4:+81985149 None:intergenic
TCGAGAATGTACTCATTATC+CGG 0.426007 4:+81985032 None:intergenic
GATGAGCTTGATCTTGTAAC+TGG 0.426566 4:+81985085 None:intergenic
CTTCCTTACTCATGCAGGGC+TGG 0.437541 4:-81984984 MsG0480023187.01.T01:CDS
GGTGCTTGCTCTTCATGTGC+TGG 0.439901 4:-81984963 MsG0480023187.01.T01:CDS
TCGATCTTCCTTACTCATGC+AGG 0.452165 4:-81984989 MsG0480023187.01.T01:CDS
TAAGTTCTTTAGTTCCATCT+GGG 0.455484 4:+81985060 None:intergenic
GCTCACCATGGTTCCTGATA+GGG 0.466904 4:+81985220 None:intergenic
TCCTGATAGGGCTGCTGTGG+TGG 0.470793 4:+81985232 None:intergenic
CATTGGCTGCCTCCTGATGA+AGG 0.472321 4:+81985193 None:intergenic
ACTTTATTTGGTGTGAAGGC+CGG 0.475879 4:-81985134 MsG0480023187.01.T01:CDS
TGATAGGGCTGCTGTGGTGG+TGG 0.476979 4:+81985235 None:intergenic
TGGTGAGCACCTCCTTCATC+AGG 0.483290 4:-81985205 MsG0480023187.01.T01:CDS
CACGTTAGGGAATGCTGTTA+GGG 0.501804 4:+81985163 None:intergenic
GCACCAGCCCTGCATGAGTA+AGG 0.502602 4:+81984981 None:intergenic
GATGATGATCAATTAAGTGC+TGG 0.507761 4:-81984894 MsG0480023187.01.T01:CDS
TCAGACTTTATTTGGTGTGA+AGG 0.514081 4:-81985138 MsG0480023187.01.T01:CDS
ATAAAGTCTGACCCACGTTA+GGG 0.523812 4:+81985150 None:intergenic
AAAAGTTGTAGAAGGGGAAG+TGG 0.534366 4:-81984940 MsG0480023187.01.T01:CDS
ATCAAGCTCATCACCCCAGA+TGG 0.540257 4:-81985074 MsG0480023187.01.T01:CDS
CTTGATCTTGTAACTGGCCA+TGG 0.544201 4:+81985091 None:intergenic
ATGATGATCAATTAAGTGCT+GGG 0.551795 4:-81984893 MsG0480023187.01.T01:CDS
AAGATCGATGCCTTGTTCCT+CGG 0.553403 4:+81985004 None:intergenic
CTCGACGTAGCCGAGGAACA+AGG 0.555180 4:-81985014 MsG0480023187.01.T01:CDS
CACTTAATTGATCATCATCA+AGG 0.556300 4:+81984898 None:intergenic
AACTAAAGAACTTACCTGCC+CGG 0.559896 4:-81985051 MsG0480023187.01.T01:CDS
TTTGGTGTGAAGGCCGGACG+TGG 0.560810 4:-81985128 MsG0480023187.01.T01:CDS
AATGTACTCATTATCCGGGC+AGG 0.566913 4:+81985037 None:intergenic
CGATCTTCCTTACTCATGCA+GGG 0.578511 4:-81984988 MsG0480023187.01.T01:CDS
GTGCTGGAAAAGTTGTAGAA+GGG 0.579438 4:-81984947 MsG0480023187.01.T01:CDS
GGTTCCTGATAGGGCTGCTG+TGG 0.579627 4:+81985229 None:intergenic
AGTGATACGACTTCCACGTC+CGG 0.584494 4:+81985115 None:intergenic
CGAGAATGTACTCATTATCC+GGG 0.584894 4:+81985033 None:intergenic
CCTTGTGTGTCTCAATAACA+AGG 0.591064 4:+81984835 None:intergenic
CCTAACAGCATTCCCTAACG+TGG 0.597665 4:-81985162 MsG0480023187.01.T01:CDS
TGCTGGAAAAGTTGTAGAAG+GGG 0.598351 4:-81984946 MsG0480023187.01.T01:CDS
TGGAAGTCGTATCACTGCCA+TGG 0.614707 4:-81985108 MsG0480023187.01.T01:CDS
GTACATTCTCGACGTAGCCG+AGG 0.630338 4:-81985021 MsG0480023187.01.T01:CDS
AAGTTCTTTAGTTCCATCTG+GGG 0.632400 4:+81985061 None:intergenic
AGCAGCCCTATCAGGAACCA+TGG 0.637647 4:-81985225 MsG0480023187.01.T01:CDS
TGGCTGCCTCCTGATGAAGG+AGG 0.644050 4:+81985196 None:intergenic
GTGTGTCTCAATAACAAGGT+CGG 0.646026 4:+81984839 None:intergenic
CCTTGTTATTGAGACACACA+AGG 0.649100 4:-81984835 MsG0480023187.01.T01:CDS
GATGAAGGAGGTGCTCACCA+TGG 0.650251 4:+81985208 None:intergenic
TCAATAACAAGGTCGGAACG+AGG 0.657316 4:+81984846 None:intergenic
CAATAACAAGGTCGGAACGA+GGG 0.670427 4:+81984847 None:intergenic
TGAGCACCTCCTTCATCAGG+AGG 0.676610 4:-81985202 MsG0480023187.01.T01:CDS
CTAACAGCATTCCCTAACGT+GGG 0.718396 4:-81985161 MsG0480023187.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATGATGATCAATTAAGTGCT+GGG - Chr4:81985140-81985159 MsG0480023187.01.T01:CDS 30.0%
CACTTAATTGATCATCATCA+AGG + Chr4:81985138-81985157 None:intergenic 30.0%
! TAAGTTCTTTAGTTCCATCT+GGG + Chr4:81984976-81984995 None:intergenic 30.0%
GATGATGATCAATTAAGTGC+TGG - Chr4:81985139-81985158 MsG0480023187.01.T01:CDS 35.0%
TCGAGAATGTACTCATTATC+CGG + Chr4:81985004-81985023 None:intergenic 35.0%
! AAGTTCTTTAGTTCCATCTG+GGG + Chr4:81984975-81984994 None:intergenic 35.0%
! GTAAGTTCTTTAGTTCCATC+TGG + Chr4:81984977-81984996 None:intergenic 35.0%
!! TCAGACTTTATTTGGTGTGA+AGG - Chr4:81984895-81984914 MsG0480023187.01.T01:CDS 35.0%
AAAAGTTGTAGAAGGGGAAG+TGG - Chr4:81985093-81985112 MsG0480023187.01.T01:CDS 40.0%
AACGTGGGTCAGACTTTATT+TGG - Chr4:81984887-81984906 MsG0480023187.01.T01:CDS 40.0%
AACTAAAGAACTTACCTGCC+CGG - Chr4:81984982-81985001 MsG0480023187.01.T01:CDS 40.0%
AATAAAGTCTGACCCACGTT+AGG + Chr4:81984887-81984906 None:intergenic 40.0%
ATAAAGTCTGACCCACGTTA+GGG + Chr4:81984886-81984905 None:intergenic 40.0%
CCTTGTGTGTCTCAATAACA+AGG + Chr4:81985201-81985220 None:intergenic 40.0%
CGAGAATGTACTCATTATCC+GGG + Chr4:81985003-81985022 None:intergenic 40.0%
GATGAGCTTGATCTTGTAAC+TGG + Chr4:81984951-81984970 None:intergenic 40.0%
GTGCTGGAAAAGTTGTAGAA+GGG - Chr4:81985086-81985105 MsG0480023187.01.T01:CDS 40.0%
GTGTGTCTCAATAACAAGGT+CGG + Chr4:81985197-81985216 None:intergenic 40.0%
TGCTGGAAAAGTTGTAGAAG+GGG - Chr4:81985087-81985106 MsG0480023187.01.T01:CDS 40.0%
TGTGCTGGAAAAGTTGTAGA+AGG - Chr4:81985085-81985104 MsG0480023187.01.T01:CDS 40.0%
!! ACTTTATTTGGTGTGAAGGC+CGG - Chr4:81984899-81984918 MsG0480023187.01.T01:CDS 40.0%
!! CCTTGTTATTGAGACACACA+AGG - Chr4:81985198-81985217 MsG0480023187.01.T01:CDS 40.0%
AATGTACTCATTATCCGGGC+AGG + Chr4:81984999-81985018 None:intergenic 45.0%
CAATAACAAGGTCGGAACGA+GGG + Chr4:81985189-81985208 None:intergenic 45.0%
CACGTTAGGGAATGCTGTTA+GGG + Chr4:81984873-81984892 None:intergenic 45.0%
CGATCTTCCTTACTCATGCA+GGG - Chr4:81985045-81985064 MsG0480023187.01.T01:CDS 45.0%
CTAACAGCATTCCCTAACGT+GGG - Chr4:81984872-81984891 MsG0480023187.01.T01:CDS 45.0%
CTTGATCTTGTAACTGGCCA+TGG + Chr4:81984945-81984964 None:intergenic 45.0%
GCTGTTAGGGTTGTGTTCAT+TGG + Chr4:81984860-81984879 None:intergenic 45.0%
TCAATAACAAGGTCGGAACG+AGG + Chr4:81985190-81985209 None:intergenic 45.0%
TCGATCTTCCTTACTCATGC+AGG - Chr4:81985044-81985063 MsG0480023187.01.T01:CDS 45.0%
! AAGATCGATGCCTTGTTCCT+CGG + Chr4:81985032-81985051 None:intergenic 45.0%
AGTGATACGACTTCCACGTC+CGG + Chr4:81984921-81984940 None:intergenic 50.0%
ATCAAGCTCATCACCCCAGA+TGG - Chr4:81984959-81984978 MsG0480023187.01.T01:CDS 50.0%
CCACGTTAGGGAATGCTGTT+AGG + Chr4:81984874-81984893 None:intergenic 50.0%
CCTAACAGCATTCCCTAACG+TGG - Chr4:81984871-81984890 MsG0480023187.01.T01:CDS 50.0%
GCTCACCATGGTTCCTGATA+GGG + Chr4:81984816-81984835 None:intergenic 50.0%
TGCTCACCATGGTTCCTGAT+AGG + Chr4:81984817-81984836 None:intergenic 50.0%
TGGAAGTCGTATCACTGCCA+TGG - Chr4:81984925-81984944 MsG0480023187.01.T01:CDS 50.0%
AGCAGCCCTATCAGGAACCA+TGG - Chr4:81984808-81984827 MsG0480023187.01.T01:CDS 55.0%
CTTCCTTACTCATGCAGGGC+TGG - Chr4:81985049-81985068 MsG0480023187.01.T01:CDS 55.0%
GGTGCTTGCTCTTCATGTGC+TGG - Chr4:81985070-81985089 MsG0480023187.01.T01:CDS 55.0%
GTACATTCTCGACGTAGCCG+AGG - Chr4:81985012-81985031 MsG0480023187.01.T01:CDS 55.0%
TGAGCACCTCCTTCATCAGG+AGG - Chr4:81984831-81984850 MsG0480023187.01.T01:CDS 55.0%
TGGTGAGCACCTCCTTCATC+AGG - Chr4:81984828-81984847 MsG0480023187.01.T01:CDS 55.0%
! CATTGGCTGCCTCCTGATGA+AGG + Chr4:81984843-81984862 None:intergenic 55.0%
!! GATGAAGGAGGTGCTCACCA+TGG + Chr4:81984828-81984847 None:intergenic 55.0%
ACCACCACAGCAGCCCTATC+AGG - Chr4:81984800-81984819 MsG0480023187.01.T01:CDS 60.0%
CTCGACGTAGCCGAGGAACA+AGG - Chr4:81985019-81985038 MsG0480023187.01.T01:CDS 60.0%
GCACCAGCCCTGCATGAGTA+AGG + Chr4:81985055-81985074 None:intergenic 60.0%
GGTTCCTGATAGGGCTGCTG+TGG + Chr4:81984807-81984826 None:intergenic 60.0%
TCCTGATAGGGCTGCTGTGG+TGG + Chr4:81984804-81984823 None:intergenic 60.0%
TGATAGGGCTGCTGTGGTGG+TGG + Chr4:81984801-81984820 None:intergenic 60.0%
TGGCTGCCTCCTGATGAAGG+AGG + Chr4:81984840-81984859 None:intergenic 60.0%
! TTTGGTGTGAAGGCCGGACG+TGG - Chr4:81984905-81984924 MsG0480023187.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr4 gene 81984794 81985261 81984794 ID=MsG0480023187.01;Name=MsG0480023187.01
Chr4 mRNA 81984794 81985261 81984794 ID=MsG0480023187.01.T01;Parent=MsG0480023187.01;Name=MsG0480023187.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|155
Chr4 exon 81984794 81985261 81984794 ID=MsG0480023187.01.T01:exon:2451;Parent=MsG0480023187.01.T01
Chr4 CDS 81984794 81985261 81984794 ID=MsG0480023187.01.T01:cds;Parent=MsG0480023187.01.T01
Gene Sequence

>MsG0480023187.01.T01

ATGGCCACCACCACAGCAGCCCTATCAGGAACCATGGTGAGCACCTCCTTCATCAGGAGGCAGCCAATGAACACAACCCTAACAGCATTCCCTAACGTGGGTCAGACTTTATTTGGTGTGAAGGCCGGACGTGGAAGTCGTATCACTGCCATGGCCAGTTACAAGATCAAGCTCATCACCCCAGATGGAACTAAAGAACTTACCTGCCCGGATAATGAGTACATTCTCGACGTAGCCGAGGAACAAGGCATCGATCTTCCTTACTCATGCAGGGCTGGTGCTTGCTCTTCATGTGCTGGAAAAGTTGTAGAAGGGGAAGTGGATAATTCAGATAATAGCTTCCTTGATGATGATCAATTAAGTGCTGGGTTTGTTCTCACATGTGTTGCTTACCCTCGTTCCGACCTTGTTATTGAGACACACAAGGAGAAGATCTTGTTTCTTAAGCATGATATTTTGTGTGTTTAA

Protein sequence

>MsG0480023187.01.T01

MATTTAALSGTMVSTSFIRRQPMNTTLTAFPNVGQTLFGVKAGRGSRITAMASYKIKLITPDGTKELTCPDNEYILDVAEEQGIDLPYSCRAGACSSCAGKVVEGEVDNSDNSFLDDDQLSAGFVLTCVAYPRSDLVIETHKEKILFLKHDILCV*