AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180001818.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001818.01.T01 MTR_2g015220 86.364 176 24 0 1 176 152 327 2.32e-113 326
MsG0180001818.01.T01 MTR_4g133015 79.739 153 30 1 25 176 35 187 1.25e-90 264
MsG0180001818.01.T01 MTR_2g025710 57.143 182 77 1 3 184 170 350 3.03e-75 231
MsG0180001818.01.T01 MTR_0003s0500 51.412 177 78 2 1 177 172 340 1.38e-56 182
MsG0180001818.01.T01 MTR_3g055380 42.857 182 97 2 1 182 149 323 4.66e-42 144
MsG0180001818.01.T01 MTR_5g094140 45.860 157 70 4 26 178 182 327 2.48e-31 118
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001818.01.T01 AT3G51970 47.514 181 86 3 1 181 150 321 1.64e-46 156
MsG0180001818.01.T01 AT5G55340 41.053 190 101 4 1 187 145 326 1.48e-36 130
MsG0180001818.01.T01 AT1G34500 37.566 189 110 2 1 188 148 329 5.39e-35 126
MsG0180001818.01.T01 AT5G55380 36.723 177 99 3 1 175 152 317 2.65e-34 124
MsG0180001818.01.T01 AT5G55350 39.560 182 103 1 3 184 147 321 5.21e-34 123
MsG0180001818.01.T01 AT5G55370 37.714 175 100 2 1 175 151 316 2.39e-33 121
MsG0180001818.01.T01 AT1G34520 37.766 188 106 5 1 187 145 322 3.91e-33 121
MsG0180001818.01.T01 AT5G55330 39.548 177 95 5 1 175 148 314 8.18e-33 120
MsG0180001818.01.T01 AT1G34490 36.264 182 103 5 9 188 153 323 1.38e-31 117
MsG0180001818.01.T01 AT5G55360 38.095 168 96 3 5 171 150 310 2.21e-27 105
MsG0180001818.01.T01 AT5G51420 36.126 191 106 3 3 187 157 337 5.85e-27 106
MsG0180001818.01.T01 AT5G55320 38.068 176 100 3 1 175 145 312 6.35e-27 104

Find 67 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCCATGTAACAGGGAGAAAA+TGG 0.230174 1:+27700488 MsG0180001818.01.T01:CDS
GCACATCAGTGCAAGACTTC+TGG 0.255875 1:+27700392 MsG0180001818.01.T01:CDS
CTCCCTGTTACATGGCTAGA+TGG 0.299047 1:-27700481 None:intergenic
CTTCAACATTGGTTCGTATA+CGG 0.321988 1:-27700458 None:intergenic
TTGCACTGATGTGCTTAGAT+AGG 0.338655 1:-27700383 None:intergenic
GAAGGCCACATGGGAGGCTT+GGG 0.341877 1:+27700591 MsG0180001818.01.T01:CDS
GGAAGGCCACATGGGAGGCT+TGG 0.347534 1:+27700590 MsG0180001818.01.T01:CDS
TTCCGGCTCTTGTTAGGTGC+AGG 0.349142 1:+27700779 MsG0180001818.01.T01:CDS
TCTTTGTTCCGGCTCTTGTT+AGG 0.355946 1:+27700773 MsG0180001818.01.T01:CDS
AAGCCATCTAGCCATGTAAC+AGG 0.358143 1:+27700478 MsG0180001818.01.T01:CDS
TGCGTTATACCTCTTTGTTC+CGG 0.361139 1:+27700762 MsG0180001818.01.T01:CDS
GTACAAGTGGAGTCCGTATA+AGG 0.361169 1:-27700275 None:intergenic
TCACAATTACAGAGGGGATT+GGG 0.371468 1:-27700513 None:intergenic
GGGAAGAAGGTGGGACATTA+TGG 0.373022 1:+27700414 MsG0180001818.01.T01:CDS
CACATCAGTGCAAGACTTCT+GGG 0.380681 1:+27700393 MsG0180001818.01.T01:CDS
CTTGGTAATAACGGGTGTTT+CGG 0.385446 1:-27700697 None:intergenic
GGAGGCTTGGGAACCATGTT+GGG 0.389158 1:+27700603 MsG0180001818.01.T01:CDS
ATTGTGACGTTTACTGTGTC+AGG 0.391421 1:+27700529 MsG0180001818.01.T01:CDS
CAGGGCTGTCCCTGAGAATT+CGG 0.400317 1:+27700798 MsG0180001818.01.T01:CDS
AGAATTCGGAGGCTCGGCTC+TGG 0.408724 1:+27700812 MsG0180001818.01.T01:CDS
TGGCTAGATGGCTTCAACAT+TGG 0.413575 1:-27700469 None:intergenic
AGCCGAGCCTCCGAATTCTC+AGG 0.422786 1:-27700808 None:intergenic
TGCACTGATGTGCTTAGATA+GGG 0.427460 1:-27700382 None:intergenic
GACACAACCCTTGGTAATAA+CGG 0.442088 1:-27700706 None:intergenic
ACGAGCAATTGTAGTAATCA+AGG 0.450589 1:-27700320 None:intergenic
AACATTGGTTCGTATACGGT+GGG 0.468155 1:-27700454 None:intergenic
GGGAGGCTTGGGAACCATGT+TGG 0.472253 1:+27700602 MsG0180001818.01.T01:CDS
ACACAACCCTTGGTAATAAC+GGG 0.475005 1:-27700705 None:intergenic
TGCAAGACTTCTGGGGAAGA+AGG 0.489010 1:+27700401 MsG0180001818.01.T01:CDS
CTTAGATAGGGTTTGTTGAA+AGG 0.495355 1:-27700370 None:intergenic
TCCGGCTCTTGTTAGGTGCA+GGG 0.497619 1:+27700780 MsG0180001818.01.T01:CDS
TCCCTGAGAATTCGGAGGCT+CGG 0.504944 1:+27700806 MsG0180001818.01.T01:CDS
ACTCCACTTGTACACTGCAT+TGG 0.508935 1:+27700285 MsG0180001818.01.T01:CDS
CCATGTAACAGGGAGAAAAT+GGG 0.511788 1:+27700489 MsG0180001818.01.T01:CDS
GAATTCGGAGGCTCGGCTCT+GGG 0.516262 1:+27700813 MsG0180001818.01.T01:CDS
GTCACAATTACAGAGGGGAT+TGG 0.524202 1:-27700514 None:intergenic
GCCCTGCACCTAACAAGAGC+CGG 0.552656 1:-27700781 None:intergenic
TTTCCAATGCAGTGTACAAG+TGG 0.557471 1:-27700288 None:intergenic
CACAATTACAGAGGGGATTG+GGG 0.560545 1:-27700512 None:intergenic
CAACATTGGTTCGTATACGG+TGG 0.561194 1:-27700455 None:intergenic
TGATATTCTATTACATGAAG+CGG 0.562980 1:+27700566 MsG0180001818.01.T01:CDS
CTATTACATGAAGCGGAGGA+AGG 0.567735 1:+27700573 MsG0180001818.01.T01:CDS
TTGTGACGTTTACTGTGTCA+GGG 0.569379 1:+27700530 MsG0180001818.01.T01:CDS
GCGGAGGAAGGCCACATGGG+AGG 0.570389 1:+27700585 MsG0180001818.01.T01:CDS
TGAAGCGGAGGAAGGCCACA+TGG 0.577881 1:+27700581 MsG0180001818.01.T01:CDS
TTTCATCCATGGGGTGTGTG+TGG 0.578748 1:+27700642 MsG0180001818.01.T01:CDS
CGAAACACCCGTTATTACCA+AGG 0.590021 1:+27700698 MsG0180001818.01.T01:CDS
AAGACTTCTGGGGAAGAAGG+TGG 0.590030 1:+27700404 MsG0180001818.01.T01:CDS
TGTGTCTTGCATCCTCACAA+TGG 0.591751 1:+27700723 MsG0180001818.01.T01:CDS
AGACTTCTGGGGAAGAAGGT+GGG 0.599021 1:+27700405 MsG0180001818.01.T01:CDS
AGTAAACGTCACAATTACAG+AGG 0.610794 1:-27700521 None:intergenic
CAAGAGCCACACACACCCCA+TGG 0.626177 1:-27700648 None:intergenic
GAAGCGGAGGAAGGCCACAT+GGG 0.627507 1:+27700582 MsG0180001818.01.T01:CDS
GGCTGTCCCTGAGAATTCGG+AGG 0.630791 1:+27700801 MsG0180001818.01.T01:CDS
AGGATGCAAGACACAACCCT+TGG 0.632292 1:-27700715 None:intergenic
GCCGAGCCTCCGAATTCTCA+GGG 0.637443 1:-27700807 None:intergenic
TATTCTATTACATGAAGCGG+AGG 0.637964 1:+27700569 MsG0180001818.01.T01:CDS
ACATTGGTTCGTATACGGTG+GGG 0.643303 1:-27700453 None:intergenic
GTAAACGTCACAATTACAGA+GGG 0.645209 1:-27700520 None:intergenic
AGCCATCTAGCCATGTAACA+GGG 0.654393 1:+27700479 MsG0180001818.01.T01:CDS
TAACAAGAGCCGGAACAAAG+AGG 0.658231 1:-27700771 None:intergenic
GAAACACCCGTTATTACCAA+GGG 0.663996 1:+27700699 MsG0180001818.01.T01:CDS
ACATCAGTGCAAGACTTCTG+GGG 0.670634 1:+27700394 MsG0180001818.01.T01:CDS
AAACACATTGAATCCCAACA+TGG 0.679535 1:-27700616 None:intergenic
ACACAACGAAGACCATTGTG+AGG 0.707144 1:-27700735 None:intergenic
TGGTTCCCAAGCCTCCCATG+TGG 0.724233 1:-27700596 None:intergenic
TAAACGTCACAATTACAGAG+GGG 0.782184 1:-27700519 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGATATTCTATTACATGAAG+CGG + Chr1:27700566-27700585 MsG0180001818.01.T01:CDS 25.0%
!! ATGTGTTTCTTTTTCATCCA+TGG + Chr1:27700631-27700650 MsG0180001818.01.T01:CDS 30.0%
!! TGTGTTTCTTTTTCATCCAT+GGG + Chr1:27700632-27700651 MsG0180001818.01.T01:CDS 30.0%
AAACACATTGAATCCCAACA+TGG - Chr1:27700619-27700638 None:intergenic 35.0%
ACGAGCAATTGTAGTAATCA+AGG - Chr1:27700323-27700342 None:intergenic 35.0%
AGTAAACGTCACAATTACAG+AGG - Chr1:27700524-27700543 None:intergenic 35.0%
GTAAACGTCACAATTACAGA+GGG - Chr1:27700523-27700542 None:intergenic 35.0%
TAAACGTCACAATTACAGAG+GGG - Chr1:27700522-27700541 None:intergenic 35.0%
TATTCTATTACATGAAGCGG+AGG + Chr1:27700569-27700588 MsG0180001818.01.T01:CDS 35.0%
!! CTTAGATAGGGTTTGTTGAA+AGG - Chr1:27700373-27700392 None:intergenic 35.0%
!! CTTCAACATTGGTTCGTATA+CGG - Chr1:27700461-27700480 None:intergenic 35.0%
!! GTGTTTCTTTTTCATCCATG+GGG + Chr1:27700633-27700652 MsG0180001818.01.T01:CDS 35.0%
ATTGTGACGTTTACTGTGTC+AGG + Chr1:27700529-27700548 MsG0180001818.01.T01:CDS 40.0%
CCATGTAACAGGGAGAAAAT+GGG + Chr1:27700489-27700508 MsG0180001818.01.T01:CDS 40.0%
GAAACACCCGTTATTACCAA+GGG + Chr1:27700699-27700718 MsG0180001818.01.T01:CDS 40.0%
TCACAATTACAGAGGGGATT+GGG - Chr1:27700516-27700535 None:intergenic 40.0%
TGCGTTATACCTCTTTGTTC+CGG + Chr1:27700762-27700781 MsG0180001818.01.T01:CDS 40.0%
TTGTGACGTTTACTGTGTCA+GGG + Chr1:27700530-27700549 MsG0180001818.01.T01:CDS 40.0%
TTTCCAATGCAGTGTACAAG+TGG - Chr1:27700291-27700310 None:intergenic 40.0%
! ACACAACCCTTGGTAATAAC+GGG - Chr1:27700708-27700727 None:intergenic 40.0%
! GACACAACCCTTGGTAATAA+CGG - Chr1:27700709-27700728 None:intergenic 40.0%
! TGCACTGATGTGCTTAGATA+GGG - Chr1:27700385-27700404 None:intergenic 40.0%
! TTGCACTGATGTGCTTAGAT+AGG - Chr1:27700386-27700405 None:intergenic 40.0%
!! AACATTGGTTCGTATACGGT+GGG - Chr1:27700457-27700476 None:intergenic 40.0%
!! CTTGGTAATAACGGGTGTTT+CGG - Chr1:27700700-27700719 None:intergenic 40.0%
AAGCCATCTAGCCATGTAAC+AGG + Chr1:27700478-27700497 MsG0180001818.01.T01:CDS 45.0%
ACACAACGAAGACCATTGTG+AGG - Chr1:27700738-27700757 None:intergenic 45.0%
ACATCAGTGCAAGACTTCTG+GGG + Chr1:27700394-27700413 MsG0180001818.01.T01:CDS 45.0%
ACTCCACTTGTACACTGCAT+TGG + Chr1:27700285-27700304 MsG0180001818.01.T01:CDS 45.0%
AGCCATCTAGCCATGTAACA+GGG + Chr1:27700479-27700498 MsG0180001818.01.T01:CDS 45.0%
CACAATTACAGAGGGGATTG+GGG - Chr1:27700515-27700534 None:intergenic 45.0%
CACATCAGTGCAAGACTTCT+GGG + Chr1:27700393-27700412 MsG0180001818.01.T01:CDS 45.0%
CGAAACACCCGTTATTACCA+AGG + Chr1:27700698-27700717 MsG0180001818.01.T01:CDS 45.0%
CTATTACATGAAGCGGAGGA+AGG + Chr1:27700573-27700592 MsG0180001818.01.T01:CDS 45.0%
GCCATGTAACAGGGAGAAAA+TGG + Chr1:27700488-27700507 MsG0180001818.01.T01:CDS 45.0%
GTACAAGTGGAGTCCGTATA+AGG - Chr1:27700278-27700297 None:intergenic 45.0%
GTCACAATTACAGAGGGGAT+TGG - Chr1:27700517-27700536 None:intergenic 45.0%
TAACAAGAGCCGGAACAAAG+AGG - Chr1:27700774-27700793 None:intergenic 45.0%
TCTTTGTTCCGGCTCTTGTT+AGG + Chr1:27700773-27700792 MsG0180001818.01.T01:CDS 45.0%
TGGCTAGATGGCTTCAACAT+TGG - Chr1:27700472-27700491 None:intergenic 45.0%
TGTGTCTTGCATCCTCACAA+TGG + Chr1:27700723-27700742 MsG0180001818.01.T01:CDS 45.0%
! CCCATTTTCTCCCTGTTACA+TGG - Chr1:27700492-27700511 None:intergenic 45.0%
!! ACATTGGTTCGTATACGGTG+GGG - Chr1:27700456-27700475 None:intergenic 45.0%
!! CAACATTGGTTCGTATACGG+TGG - Chr1:27700458-27700477 None:intergenic 45.0%
AGGATGCAAGACACAACCCT+TGG - Chr1:27700718-27700737 None:intergenic 50.0%
CTCCCTGTTACATGGCTAGA+TGG - Chr1:27700484-27700503 None:intergenic 50.0%
GCACATCAGTGCAAGACTTC+TGG + Chr1:27700392-27700411 MsG0180001818.01.T01:CDS 50.0%
GGGAAGAAGGTGGGACATTA+TGG + Chr1:27700414-27700433 MsG0180001818.01.T01:CDS 50.0%
TTTCATCCATGGGGTGTGTG+TGG + Chr1:27700642-27700661 MsG0180001818.01.T01:CDS 50.0%
! AAGACTTCTGGGGAAGAAGG+TGG + Chr1:27700404-27700423 MsG0180001818.01.T01:CDS 50.0%
! AGACTTCTGGGGAAGAAGGT+GGG + Chr1:27700405-27700424 MsG0180001818.01.T01:CDS 50.0%
! TGCAAGACTTCTGGGGAAGA+AGG + Chr1:27700401-27700420 MsG0180001818.01.T01:CDS 50.0%
CAGGGCTGTCCCTGAGAATT+CGG + Chr1:27700798-27700817 MsG0180001818.01.T01:CDS 55.0%
GGAGGCTTGGGAACCATGTT+GGG + Chr1:27700603-27700622 MsG0180001818.01.T01:CDS 55.0%
TCCCTGAGAATTCGGAGGCT+CGG + Chr1:27700806-27700825 MsG0180001818.01.T01:CDS 55.0%
TCCGGCTCTTGTTAGGTGCA+GGG + Chr1:27700780-27700799 MsG0180001818.01.T01:CDS 55.0%
TTCCGGCTCTTGTTAGGTGC+AGG + Chr1:27700779-27700798 MsG0180001818.01.T01:CDS 55.0%
AGAATTCGGAGGCTCGGCTC+TGG + Chr1:27700812-27700831 MsG0180001818.01.T01:CDS 60.0%
AGCCGAGCCTCCGAATTCTC+AGG - Chr1:27700811-27700830 None:intergenic 60.0%
CAAGAGCCACACACACCCCA+TGG - Chr1:27700651-27700670 None:intergenic 60.0%
GAAGCGGAGGAAGGCCACAT+GGG + Chr1:27700582-27700601 MsG0180001818.01.T01:CDS 60.0%
GAAGGCCACATGGGAGGCTT+GGG + Chr1:27700591-27700610 MsG0180001818.01.T01:CDS 60.0%
GAATTCGGAGGCTCGGCTCT+GGG + Chr1:27700813-27700832 MsG0180001818.01.T01:CDS 60.0%
GCCCTGCACCTAACAAGAGC+CGG - Chr1:27700784-27700803 None:intergenic 60.0%
GCCGAGCCTCCGAATTCTCA+GGG - Chr1:27700810-27700829 None:intergenic 60.0%
GGCTGTCCCTGAGAATTCGG+AGG + Chr1:27700801-27700820 MsG0180001818.01.T01:CDS 60.0%
GGGAGGCTTGGGAACCATGT+TGG + Chr1:27700602-27700621 MsG0180001818.01.T01:CDS 60.0%
TGAAGCGGAGGAAGGCCACA+TGG + Chr1:27700581-27700600 MsG0180001818.01.T01:CDS 60.0%
TGGTTCCCAAGCCTCCCATG+TGG - Chr1:27700599-27700618 None:intergenic 60.0%
GGAAGGCCACATGGGAGGCT+TGG + Chr1:27700590-27700609 MsG0180001818.01.T01:CDS 65.0%
GCGGAGGAAGGCCACATGGG+AGG + Chr1:27700585-27700604 MsG0180001818.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr1 gene 27700271 27700840 27700271 ID=MsG0180001818.01;Name=MsG0180001818.01
Chr1 mRNA 27700271 27700840 27700271 ID=MsG0180001818.01.T01;Parent=MsG0180001818.01;Name=MsG0180001818.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|189
Chr1 exon 27700271 27700840 27700271 ID=MsG0180001818.01.T01:exon:1071;Parent=MsG0180001818.01.T01
Chr1 CDS 27700271 27700840 27700271 ID=MsG0180001818.01.T01:cds;Parent=MsG0180001818.01.T01
Gene Sequence

>MsG0180001818.01.T01

ATGTCCTTATACGGACTCCACTTGTACACTGCATTGGAAATATTTCTTGCCTTGATTACTACAATTGCTCGTAAAGTTTTACAAGTAGAGTTCGAGCAACCTTTCAACAAACCCTATCTAAGCACATCAGTGCAAGACTTCTGGGGAAGAAGGTGGGACATTATGGTCACACGTATCTTACACCCCACCGTATACGAACCAATGTTGAAGCCATCTAGCCATGTAACAGGGAGAAAATGGGCCCCAATCCCCTCTGTAATTGTGACGTTTACTGTGTCAGGGTTCATGCACGATTTGATATTCTATTACATGAAGCGGAGGAAGGCCACATGGGAGGCTTGGGAACCATGTTGGGATTCAATGTGTTTCTTTTTCATCCATGGGGTGTGTGTGGCTCTTGAAATTGCATACAAGAAGATCTTCAAACCGAAACACCCGTTATTACCAAGGGTTGTGTCTTGCATCCTCACAATGGTCTTCGTTGTGTCTACTGCGTTATACCTCTTTGTTCCGGCTCTTGTTAGGTGCAGGGCTGTCCCTGAGAATTCGGAGGCTCGGCTCTGGGAATGA
Protein sequence

>MsG0180001818.01.T01

MSLYGLHLYTALEIFLALITTIARKVLQVEFEQPFNKPYLSTSVQDFWGRRWDIMVTRILHPTVYEPMLKPSSHVTGRKWAPIPSVIVTFTVSGFMHDLIFYYMKRRKATWEAWEPCWDSMCFFFIHGVCVALEIAYKKIFKPKHPLLPRVVSCILTMVFVVSTALYLFVPALVRCRAVPENSEARLWE*