AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180003320.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180003320.01.T01 MTR_1g058540 96.923 130 4 0 1 130 38 167 1.09e-87 254
MsG0180003320.01.T01 MTR_1g058560 83.846 130 21 0 1 130 37 166 2.91e-63 192
MsG0180003320.01.T01 MTR_1g058570 80.769 130 25 0 1 130 36 165 8.49e-63 191
MsG0180003320.01.T01 MTR_2g086740 62.500 128 48 0 1 128 62 189 2.04e-44 145
MsG0180003320.01.T01 MTR_7g011090 53.846 130 60 0 1 130 28 157 5.14e-40 133
MsG0180003320.01.T01 MTR_4g081880 41.538 130 76 0 1 130 29 158 7.01e-32 112
MsG0180003320.01.T01 MTR_5g041900 47.692 130 68 0 1 130 28 157 1.09e-30 109
MsG0180003320.01.T01 MTR_2g086740 60.674 89 35 0 1 89 62 150 1.15e-27 100
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180003320.01.T01 AT2G36100 62.992 127 47 0 2 128 49 175 9.13e-54 168
MsG0180003320.01.T01 AT3G11550 69.643 112 34 0 19 130 64 175 5.82e-50 159
MsG0180003320.01.T01 AT5G06200 67.857 112 36 0 19 130 62 173 3.85e-46 149
MsG0180003320.01.T01 AT2G27370 60.630 127 50 0 2 128 63 189 3.11e-45 147
MsG0180003320.01.T01 AT5G15290 45.385 130 71 0 1 130 28 157 5.61e-39 130
MsG0180003320.01.T01 AT1G14160 39.189 148 86 1 1 144 51 198 1.22e-30 109
MsG0180003320.01.T01 AT1G03700 33.594 128 76 2 3 130 11 129 3.23e-14 66.2
MsG0180003320.01.T01 AT3G06390 27.820 133 91 2 1 128 37 169 6.56e-12 60.8
MsG0180003320.01.T01 AT4G03540 32.743 113 67 2 18 130 26 129 2.10e-11 58.9

Find 30 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGCCATTTGCAACCAATT+TGG 0.187527 1:-60598491 MsG0180003320.01.T01:CDS
ATGATGGTTACTATGGAAAA+TGG 0.329026 1:+60599148 None:intergenic
AGCAGCTGCCATGGTTTACT+TGG 0.359773 1:-60598543 MsG0180003320.01.T01:CDS
ATCATTCGCCCTCATGCATC+TGG 0.377835 1:-60599130 MsG0180003320.01.T01:CDS
GGCATTTGTGGGTGGCTACC+TGG 0.401958 1:-60599182 MsG0180003320.01.T01:CDS
AGGGCGAATGATGGTTACTA+TGG 0.422728 1:+60599141 None:intergenic
CATAACTAGCTTCAAATTGA+AGG 0.426220 1:+60599454 None:intergenic
ATGGCAATCAAGACTCAAAC+TGG 0.433393 1:-60598514 MsG0180003320.01.T01:CDS
ATCTCCAAATTGGTTGCAAA+TGG 0.439108 1:+60598487 None:intergenic
TGTTATTGCAATGGCATTTG+TGG 0.446696 1:-60599194 MsG0180003320.01.T01:CDS
GTTATTGCAATGGCATTTGT+GGG 0.458726 1:-60599193 MsG0180003320.01.T01:CDS
TGGTTACTATGGAAAATGGT+AGG 0.486275 1:+60599152 None:intergenic
TGGTGCTTCAGCAGCTGCCA+TGG 0.489524 1:-60598552 MsG0180003320.01.T01:CDS
TGAAGGAACTGAGTGAAGAA+AGG 0.493692 1:+60599471 None:intergenic
TGCAGCAAGAGAAGCTGCTA+TGG 0.527344 1:+60599527 None:intergenic
GGTTACTATGGAAAATGGTA+GGG 0.561081 1:+60599153 None:intergenic
AGATGCATGAGGGCGAATGA+TGG 0.573876 1:+60599132 None:intergenic
TGCTGAAGCACCACTAGCAG+TGG 0.592321 1:+60598562 None:intergenic
AATCTGATCACTAGTTGCCA+TGG 0.596028 1:+60599497 None:intergenic
ATTGCAATGGCATTTGTGGG+TGG 0.596308 1:-60599190 MsG0180003320.01.T01:CDS
ATGACATTAGCCACTGCTAG+TGG 0.602800 1:-60598572 MsG0180003320.01.T01:CDS
GCCCTCATGCATCTGGACCA+AGG 0.605836 1:-60599123 MsG0180003320.01.T01:CDS
ATGGTTTACTTGGCACACAA+TGG 0.608727 1:-60598533 MsG0180003320.01.T01:CDS
GCGATGATGAGGAAAAGCCT+TGG 0.613791 1:+60599106 None:intergenic
GCCTTGGTCCAGATGCATGA+GGG 0.641599 1:+60599122 None:intergenic
TTACTGTGTCTGCGATGATG+AGG 0.667059 1:+60599095 None:intergenic
AGCCTTGGTCCAGATGCATG+AGG 0.674067 1:+60599121 None:intergenic
TCTTGCTGCAACTATCACCA+TGG 0.694318 1:-60599514 MsG0180003320.01.T01:CDS
AAAATGGTAGGGATAAGACC+AGG 0.708096 1:+60599164 None:intergenic
ATTGTGTGCCAAGTAAACCA+TGG 0.791669 1:+60598535 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAAATCAATAAAGCAA+TGG + Chr1:60599077-60599096 None:intergenic 15.0%
!! ACTCTAATTAAGAATTAATT+AGG + Chr1:60598928-60598947 None:intergenic 15.0%
!! TAAGAATTAATTAGGAAATT+AGG + Chr1:60598920-60598939 None:intergenic 15.0%
!! TCATGTAAAAAAAATTTGAA+GGG + Chr1:60598971-60598990 None:intergenic 15.0%
!! TTCATGTAAAAAAAATTTGA+AGG + Chr1:60598972-60598991 None:intergenic 15.0%
!!! AAATTATTTGTTTAAGTTAG+AGG + Chr1:60598589-60598608 None:intergenic 15.0%
!!! AGAAACTATTATTTTAAAAG+TGG - Chr1:60599300-60599319 MsG0180003320.01.T01:intron 15.0%
!! AATGTTTATTGTAAATATGC+AGG - Chr1:60598760-60598779 MsG0180003320.01.T01:intron 20.0%
!! ATGAACATATATATTCTAGT+AGG - Chr1:60598987-60599006 MsG0180003320.01.T01:intron 20.0%
!!! GTTAAGTACTTTTAAAAAAC+TGG - Chr1:60599271-60599290 MsG0180003320.01.T01:intron 20.0%
! AATGAGGAAATGAACTATTA+AGG - Chr1:60599186-60599205 MsG0180003320.01.T01:CDS 25.0%
! GGTCATTTGAAAATAAATAG+AGG + Chr1:60599056-60599075 None:intergenic 25.0%
!!! ATGGATTTTGTTCTAAGATT+AGG - Chr1:60598430-60598449 MsG0180003320.01.T01:CDS 25.0%
ATGATGGTTACTATGGAAAA+TGG + Chr1:60598837-60598856 None:intergenic 30.0%
ATTACTCCTTGTGTTTCTTT+CGG - Chr1:60599030-60599049 MsG0180003320.01.T01:intron 30.0%
GAAGATAAATTGCTACAATG+AGG - Chr1:60599170-60599189 MsG0180003320.01.T01:CDS 30.0%
TAATGTCATAAACACCTACA+CGG + Chr1:60599399-60599418 None:intergenic 30.0%
TGGACTAAATAAATACACCT+AGG + Chr1:60598634-60598653 None:intergenic 30.0%
! AATACACCTAGGTTTTACAA+TGG + Chr1:60598623-60598642 None:intergenic 30.0%
! CATAACTAGCTTCAAATTGA+AGG + Chr1:60598531-60598550 None:intergenic 30.0%
! GTGTAGTTCAAATTTTGTGT+TGG + Chr1:60598654-60598673 None:intergenic 30.0%
!!! CAGGTTTTTTGTTATTGCAA+TGG - Chr1:60598779-60598798 MsG0180003320.01.T01:intron 30.0%
ATCTCCAAATTGGTTGCAAA+TGG + Chr1:60599498-60599517 None:intergenic 35.0%
GAGCACAAAAATCTCCAAAT+TGG + Chr1:60599508-60599527 None:intergenic 35.0%
GAGGTTTAAATGTGACATAC+TGG + Chr1:60598570-60598589 None:intergenic 35.0%
GGTTACTATGGAAAATGGTA+GGG + Chr1:60598832-60598851 None:intergenic 35.0%
GTTATTGCAATGGCATTTGT+GGG - Chr1:60598789-60598808 MsG0180003320.01.T01:intron 35.0%
TGGTTACTATGGAAAATGGT+AGG + Chr1:60598833-60598852 None:intergenic 35.0%
TGTTATTGCAATGGCATTTG+TGG - Chr1:60598788-60598807 MsG0180003320.01.T01:intron 35.0%
! AAACTCAAACTTTTCCGTGT+AGG - Chr1:60599382-60599401 MsG0180003320.01.T01:intron 35.0%
! AGATTTTTGTGCTCAACAAG+TGG - Chr1:60599514-60599533 MsG0180003320.01.T01:CDS 35.0%
!! TGTGTCATGTTTTATTGCTG+TGG - Chr1:60599543-60599562 MsG0180003320.01.T01:CDS 35.0%
AAAATGGTAGGGATAAGACC+AGG + Chr1:60598821-60598840 None:intergenic 40.0%
AATCTGATCACTAGTTGCCA+TGG + Chr1:60598488-60598507 None:intergenic 40.0%
ATGGCAATCAAGACTCAAAC+TGG - Chr1:60599468-60599487 MsG0180003320.01.T01:CDS 40.0%
ATGGTTTACTTGGCACACAA+TGG - Chr1:60599449-60599468 MsG0180003320.01.T01:CDS 40.0%
ATTGTGTGCCAAGTAAACCA+TGG + Chr1:60599450-60599469 None:intergenic 40.0%
TGAAGGAACTGAGTGAAGAA+AGG + Chr1:60598514-60598533 None:intergenic 40.0%
! ACACCTAGGTTTTACAATGG+AGG + Chr1:60598620-60598639 None:intergenic 40.0%
! CACCTAGGTTTTACAATGGA+GGG + Chr1:60598619-60598638 None:intergenic 40.0%
! CTTGCCATTTGCAACCAATT+TGG - Chr1:60599491-60599510 MsG0180003320.01.T01:CDS 40.0%
AGGGCGAATGATGGTTACTA+TGG + Chr1:60598844-60598863 None:intergenic 45.0%
ATGACATTAGCCACTGCTAG+TGG - Chr1:60599410-60599429 MsG0180003320.01.T01:intron 45.0%
ATTGCAATGGCATTTGTGGG+TGG - Chr1:60598792-60598811 MsG0180003320.01.T01:intron 45.0%
CTCCCTCCATTGTAAAACCT+AGG - Chr1:60598614-60598633 MsG0180003320.01.T01:intron 45.0%
TAGAGGCCGAAAGAAACACA+AGG + Chr1:60599039-60599058 None:intergenic 45.0%
TCTTGCTGCAACTATCACCA+TGG - Chr1:60598468-60598487 MsG0180003320.01.T01:CDS 45.0%
TTACTGTGTCTGCGATGATG+AGG + Chr1:60598890-60598909 None:intergenic 45.0%
AGATGCATGAGGGCGAATGA+TGG + Chr1:60598853-60598872 None:intergenic 50.0%
AGCAGCTGCCATGGTTTACT+TGG - Chr1:60599439-60599458 MsG0180003320.01.T01:CDS 50.0%
ATCATTCGCCCTCATGCATC+TGG - Chr1:60598852-60598871 MsG0180003320.01.T01:intron 50.0%
GCGATGATGAGGAAAAGCCT+TGG + Chr1:60598879-60598898 None:intergenic 50.0%
TGCAGCAAGAGAAGCTGCTA+TGG + Chr1:60598458-60598477 None:intergenic 50.0%
AGCCTTGGTCCAGATGCATG+AGG + Chr1:60598864-60598883 None:intergenic 55.0%
GCCTTGGTCCAGATGCATGA+GGG + Chr1:60598863-60598882 None:intergenic 55.0%
! TGCTGAAGCACCACTAGCAG+TGG + Chr1:60599423-60599442 None:intergenic 55.0%
GCCCTCATGCATCTGGACCA+AGG - Chr1:60598859-60598878 MsG0180003320.01.T01:intron 60.0%
GGCATTTGTGGGTGGCTACC+TGG - Chr1:60598800-60598819 MsG0180003320.01.T01:intron 60.0%
TGGTGCTTCAGCAGCTGCCA+TGG - Chr1:60599430-60599449 MsG0180003320.01.T01:intron 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 60598430 60599574 60598430 ID=MsG0180003320.01;Name=MsG0180003320.01
Chr1 mRNA 60598430 60599574 60598430 ID=MsG0180003320.01.T01;Parent=MsG0180003320.01;Name=MsG0180003320.01.T01;_AED=0.16;_eAED=0.21;_QI=0|0|0|1|1|1|3|0|144
Chr1 exon 60599435 60599574 60599435 ID=MsG0180003320.01.T01:exon:49398;Parent=MsG0180003320.01.T01
Chr1 exon 60599099 60599222 60599099 ID=MsG0180003320.01.T01:exon:49397;Parent=MsG0180003320.01.T01
Chr1 exon 60598430 60598600 60598430 ID=MsG0180003320.01.T01:exon:49396;Parent=MsG0180003320.01.T01
Chr1 CDS 60599435 60599574 60599435 ID=MsG0180003320.01.T01:cds;Parent=MsG0180003320.01.T01
Chr1 CDS 60599099 60599222 60599099 ID=MsG0180003320.01.T01:cds;Parent=MsG0180003320.01.T01
Chr1 CDS 60598430 60598600 60598430 ID=MsG0180003320.01.T01:cds;Parent=MsG0180003320.01.T01
Gene Sequence

>MsG0180003320.01.T01

ATGGATTTTGTTCTAAGATTAGGTGCCATAGCAGCTTCTCTTGCTGCAACTATCACCATGGCAACTAGTGATCAGATTCTTCCTTTCTTCACTCAGTTCCTTCAATTTGAAGCTAGTTATGATAGCTTTTCAACTTTCCAGTTTTTTGTTATTGCAATGGCATTTGTGGGTGGCTACCTGGTCTTATCCCTACCATTTTCCATAGTAACCATCATTCGCCCTCATGCATCTGGACCAAGGCTTTTCCTCATCATCGCAGACACAGTGTTTATGACATTAGCCACTGCTAGTGGTGCTTCAGCAGCTGCCATGGTTTACTTGGCACACAATGGCAATCAAGACTCAAACTGGCTTGCCATTTGCAACCAATTTGGAGATTTTTGTGCTCAACAAGTGGAGCAGTTGTGTCATGTTTTATTGCTGTGGTTGTTTTAA

Protein sequence

>MsG0180003320.01.T01

MDFVLRLGAIAASLAATITMATSDQILPFFTQFLQFEASYDSFSTFQFFVIAMAFVGGYLVLSLPFSIVTIIRPHASGPRLFLIIADTVFMTLATASGASAAAMVYLAHNGNQDSNWLAICNQFGDFCAQQVEQLCHVLLLWLF*