AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010909.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010909.01.T01 MTR_2g094410 92.857 154 11 0 2 155 3 156 1.26e-98 281
MsG0280010909.01.T01 MTR_4g059320 59.740 154 51 6 10 154 7 158 2.35e-47 151
MsG0280010909.01.T01 MTR_7g101250 46.711 152 69 6 14 155 11 160 1.85e-27 100
MsG0280010909.01.T01 MTR_4g132020 58.333 84 28 2 71 153 97 174 4.00e-24 92.4
MsG0280010909.01.T01 MTR_2g023070 54.639 97 37 3 60 153 124 216 1.20e-23 92.4
MsG0280010909.01.T01 MTR_2g023390 54.651 86 31 2 72 153 73 154 6.72e-21 83.6
MsG0280010909.01.T01 MTR_3g052330 48.214 112 29 5 73 155 87 198 4.70e-20 82.4
MsG0280010909.01.T01 MTR_2g086660 45.545 101 42 3 63 155 160 255 7.71e-18 77.8
MsG0280010909.01.T01 MTR_2g086660 44.898 98 41 3 63 152 160 252 1.24e-16 75.1
MsG0280010909.01.T01 MTR_2g018175 51.163 86 28 4 71 153 50 124 8.01e-12 59.3
MsG0280010909.01.T01 MTR_7g105130 62.500 48 14 1 112 155 170 217 4.53e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010909.01.T01 AT3G45210 54.487 156 62 4 1 155 1 148 4.30e-45 145
MsG0280010909.01.T01 AT5G60680 53.374 163 64 5 4 155 2 163 1.21e-40 134
MsG0280010909.01.T01 AT2G28400 44.785 163 77 3 4 155 2 162 9.49e-34 116
MsG0280010909.01.T01 AT5G03230 40.260 154 77 3 17 155 13 166 1.13e-30 108
MsG0280010909.01.T01 AT4G21970 50.000 86 38 2 72 153 59 143 2.37e-22 87.4
MsG0280010909.01.T01 AT4G04630 55.556 90 31 3 72 153 78 166 1.02e-21 86.3
MsG0280010909.01.T01 AT1G11700 49.451 91 34 3 71 153 113 199 1.70e-17 75.9
MsG0280010909.01.T01 AT1G61930 40.397 151 69 5 15 153 60 201 5.78e-16 72.0
MsG0280010909.01.T01 AT4G21930 38.125 160 83 5 8 153 24 181 2.38e-15 70.1
MsG0280010909.01.T01 AT3G15040 45.977 87 43 1 73 155 157 243 1.87e-13 65.9
MsG0280010909.01.T01 AT4G26950 47.674 86 30 3 70 153 70 142 7.62e-13 62.4
MsG0280010909.01.T01 AT4G26950 47.674 86 30 3 70 153 70 142 7.62e-13 62.4
MsG0280010909.01.T01 AT1G29640 36.054 147 55 6 33 153 4 137 5.04e-12 60.1

Find 28 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAAAGGACGTGATCTTAGT+AGG 0.356206 2:+76692005 MsG0280010909.01.T01:CDS
GTAGGGTTCGAAATGCGATT+TGG 0.368232 2:+76692023 MsG0280010909.01.T01:CDS
AATGCGATTTGGGCTAAAAC+TGG 0.386558 2:+76692034 MsG0280010909.01.T01:CDS
TAGGGTTCGAAATGCGATTT+GGG 0.387561 2:+76692024 MsG0280010909.01.T01:CDS
CCGGATTGGTCAAAGATACT+TGG 0.412621 2:+76691836 MsG0280010909.01.T01:CDS
AGTGACAGAATTGTTGTTTG+TGG 0.431710 2:-76691663 None:intergenic
GACCAATCCGGAACATTCAC+TGG 0.432548 2:-76691824 None:intergenic
CCAAGTATCTTTGACCAATC+CGG 0.462167 2:-76691836 None:intergenic
GTTTCTTGCTAGAACAAGAA+TGG 0.469698 2:+76691946 MsG0280010909.01.T01:CDS
GAGAAGAGTACAGACAGAAT+CGG 0.512523 2:+76691858 MsG0280010909.01.T01:CDS
GAAAGGACGTGATCTTAGTA+GGG 0.515217 2:+76692006 MsG0280010909.01.T01:CDS
ATCCATGCCAGTGAATGTTC+CGG 0.518219 2:+76691817 MsG0280010909.01.T01:CDS
CGAACAGAATTGCGAAACTC+GGG 0.519518 2:-76691740 None:intergenic
ACAGAATTGTTGTTTGTGGA+TGG 0.537414 2:-76691659 None:intergenic
CGGAGAAGAAACTACGATGA+AGG 0.537583 2:+76691878 MsG0280010909.01.T01:CDS
ATCCGGAACATTCACTGGCA+TGG 0.543608 2:-76691819 None:intergenic
GCGAACAGAATTGCGAAACT+CGG 0.544578 2:-76691741 None:intergenic
TGCCAGTGAATGTTCCGGAT+TGG 0.563878 2:+76691822 MsG0280010909.01.T01:CDS
GGTGTTGGTAGAACTTTGAA+AGG 0.587716 2:+76691989 MsG0280010909.01.T01:CDS
TCATCATCTTCCACCACAGA+TGG 0.593043 2:+76691785 MsG0280010909.01.T01:CDS
TGTGGATGGAAGAAAGTGGT+AGG 0.600913 2:-76691645 None:intergenic
CTAGCAAGAAACTCATGCGG+TGG 0.621557 2:-76691935 None:intergenic
GAACAGAATTGCGAAACTCG+GGG 0.627546 2:-76691739 None:intergenic
GGATGACACACGACCATCTG+TGG 0.637165 2:-76691798 None:intergenic
TGTTTGTGGATGGAAGAAAG+TGG 0.675726 2:-76691649 None:intergenic
AACAGAATTGCGAAACTCGG+GGG 0.678802 2:-76691738 None:intergenic
TGACACACGACCATCTGTGG+TGG 0.684194 2:-76691795 None:intergenic
GTTCTAGCAAGAAACTCATG+CGG 0.717420 2:-76691938 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GTTTCTTGCTAGAACAAGAA+TGG + Chr2:76691946-76691965 MsG0280010909.01.T01:CDS 35.0%
! GCTTCATTTTCTGTTCATGA+AGG + Chr2:76691968-76691987 MsG0280010909.01.T01:CDS 35.0%
!! ACAGAATTGTTGTTTGTGGA+TGG - Chr2:76691662-76691681 None:intergenic 35.0%
!! AGTGACAGAATTGTTGTTTG+TGG - Chr2:76691666-76691685 None:intergenic 35.0%
!! TTTTCTGTTCATGAAGGTGT+TGG + Chr2:76691974-76691993 MsG0280010909.01.T01:CDS 35.0%
CCAAGTATCTTTGACCAATC+CGG - Chr2:76691839-76691858 None:intergenic 40.0%
GAAAGGACGTGATCTTAGTA+GGG + Chr2:76692006-76692025 MsG0280010909.01.T01:CDS 40.0%
GTTCTAGCAAGAAACTCATG+CGG - Chr2:76691941-76691960 None:intergenic 40.0%
TAGGGTTCGAAATGCGATTT+GGG + Chr2:76692024-76692043 MsG0280010909.01.T01:CDS 40.0%
TGAAAGGACGTGATCTTAGT+AGG + Chr2:76692005-76692024 MsG0280010909.01.T01:CDS 40.0%
TGTTTGTGGATGGAAGAAAG+TGG - Chr2:76691652-76691671 None:intergenic 40.0%
! AATGCGATTTGGGCTAAAAC+TGG + Chr2:76692034-76692053 MsG0280010909.01.T01:CDS 40.0%
! GAGAAGAGTACAGACAGAAT+CGG + Chr2:76691858-76691877 MsG0280010909.01.T01:CDS 40.0%
!! AGGTTTGTTTTCGAACATGG+TGG - Chr2:76691628-76691647 None:intergenic 40.0%
!! GGTAGGTTTGTTTTCGAACA+TGG - Chr2:76691631-76691650 None:intergenic 40.0%
!! GGTGTTGGTAGAACTTTGAA+AGG + Chr2:76691989-76692008 MsG0280010909.01.T01:CDS 40.0%
AACAGAATTGCGAAACTCGG+GGG - Chr2:76691741-76691760 None:intergenic 45.0%
ATCCATGCCAGTGAATGTTC+CGG + Chr2:76691817-76691836 MsG0280010909.01.T01:CDS 45.0%
CGAACAGAATTGCGAAACTC+GGG - Chr2:76691743-76691762 None:intergenic 45.0%
CGGAGAAGAAACTACGATGA+AGG + Chr2:76691878-76691897 MsG0280010909.01.T01:CDS 45.0%
GAACAGAATTGCGAAACTCG+GGG - Chr2:76691742-76691761 None:intergenic 45.0%
GCGAACAGAATTGCGAAACT+CGG - Chr2:76691744-76691763 None:intergenic 45.0%
GTAGGGTTCGAAATGCGATT+TGG + Chr2:76692023-76692042 MsG0280010909.01.T01:CDS 45.0%
TCATCATCTTCCACCACAGA+TGG + Chr2:76691785-76691804 MsG0280010909.01.T01:CDS 45.0%
TGTGGATGGAAGAAAGTGGT+AGG - Chr2:76691648-76691667 None:intergenic 45.0%
! GTTCGCGTTTCTCGTTTTCA+AGG + Chr2:76691758-76691777 MsG0280010909.01.T01:CDS 45.0%
!! CCGGATTGGTCAAAGATACT+TGG + Chr2:76691836-76691855 MsG0280010909.01.T01:CDS 45.0%
ATCCGGAACATTCACTGGCA+TGG - Chr2:76691822-76691841 None:intergenic 50.0%
CTAGCAAGAAACTCATGCGG+TGG - Chr2:76691938-76691957 None:intergenic 50.0%
GACCAATCCGGAACATTCAC+TGG - Chr2:76691827-76691846 None:intergenic 50.0%
TGCCAGTGAATGTTCCGGAT+TGG + Chr2:76691822-76691841 MsG0280010909.01.T01:CDS 50.0%
GGATGACACACGACCATCTG+TGG - Chr2:76691801-76691820 None:intergenic 55.0%
TGACACACGACCATCTGTGG+TGG - Chr2:76691798-76691817 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 76691602 76692069 76691602 ID=MsG0280010909.01;Name=MsG0280010909.01
Chr2 mRNA 76691602 76692069 76691602 ID=MsG0280010909.01.T01;Parent=MsG0280010909.01;Name=MsG0280010909.01.T01;_AED=0.41;_eAED=0.41;_QI=0|-1|0|1|-1|1|1|0|155
Chr2 exon 76691602 76692069 76691602 ID=MsG0280010909.01.T01:exon:11280;Parent=MsG0280010909.01.T01
Chr2 CDS 76691602 76692069 76691602 ID=MsG0280010909.01.T01:cds;Parent=MsG0280010909.01.T01
Gene Sequence

>MsG0280010909.01.T01

ATGGCAACAACAACAACTAAGAACCACCATGTTCGAAAACAAACCTACCACTTTCTTCCATCCACAAACAACAATTCTGTCACTGATTCACTCTTCGAGTTCGACGAATCAGAACTCTACAACACTAACTCAAATTCCCCCGAGTTTCGCAATTCTGTTCGCGTTTCTCGTTTTCAAGGTACTTCATCATCTTCCACCACAGATGGTCGTGTGTCATCCATGCCAGTGAATGTTCCGGATTGGTCAAAGATACTTGGAGAAGAGTACAGACAGAATCGGAGAAGAAACTACGATGAAGGTGATGATGAAGATGAAGAAGATGACGAGAAAGTTCCACCGCATGAGTTTCTTGCTAGAACAAGAATGGCTTCATTTTCTGTTCATGAAGGTGTTGGTAGAACTTTGAAAGGACGTGATCTTAGTAGGGTTCGAAATGCGATTTGGGCTAAAACTGGTTTTCAAGACTAG
Protein sequence

>MsG0280010909.01.T01

MATTTTKNHHVRKQTYHFLPSTNNNSVTDSLFEFDESELYNTNSNSPEFRNSVRVSRFQGTSSSSTTDGRVSSMPVNVPDWSKILGEEYRQNRRRNYDEGDDEDEEDDEKVPPHEFLARTRMASFSVHEGVGRTLKGRDLSRVRNAIWAKTGFQD*