AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008075

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008075 MtrunA17_Chr2g0299471 96.667 450 12 2 81 530 6 452 0.0 875
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008075 AT5G56960.2 39.963 543 262 18 12 522 13 523 3.60e-89 284
MsaG008075 AT5G56960.1 36.149 509 237 17 44 522 14 464 3.24e-60 206

Find 95 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATGTATTGATTCGATTAT+TGG 0.081677 2:+27769692 MsaT008075.1:CDS
CTAAAATTTGACCCTATATT+AGG 0.183433 2:-27768738 None:intergenic
GATCATTGAGTCATATATTT+TGG 0.239604 2:-27771716 None:intergenic
GATGCTCTCACATTTGTCTT+TGG 0.245611 2:+27767027 MsaT008075.1:CDS
GAATAGTCGTTTGTCCTTCT+TGG 0.247039 2:+27767195 MsaT008075.1:intron
AAATATATACTTTGATAATA+TGG 0.249981 2:-27767060 None:intergenic
CAATTACCAAGTTCTTCTTT+AGG 0.263208 2:+27767244 MsaT008075.1:CDS
AATTACCAAGTTCTTCTTTA+GGG 0.266258 2:+27767245 MsaT008075.1:CDS
CCACTCTTCTCACTGCTTCC+TGG 0.304864 2:-27771665 None:intergenic
TCATTCTCAATTTGTGTTGT+AGG 0.322222 2:-27768591 None:intergenic
CTTCCAAATGCACTAGCTTC+TGG 0.330949 2:-27768696 None:intergenic
TACTTCATCAAATAACCTTC+AGG 0.345353 2:+27769793 MsaT008075.1:CDS
CATGATAAAAGTCCTAATAT+AGG 0.347025 2:+27768726 MsaT008075.1:CDS
CTCCTTAGCTGTTATCAGTA+TGG 0.357487 2:-27769433 None:intergenic
AATATGAGAGATGAGTATTC+AGG 0.359714 2:-27768414 None:intergenic
CATCCAGAAGCTAGTGCATT+TGG 0.365951 2:+27768693 MsaT008075.1:CDS
ATGGGACGAGGAAGCCTTCC+AGG 0.369330 2:+27771647 MsaT008075.1:CDS
GGTAGTAATGTGTTTGAAAC+AGG 0.374921 2:-27768522 None:intergenic
ATGATAAAAGTCCTAATATA+GGG 0.380695 2:+27768727 MsaT008075.1:CDS
GGAGACATTGAGATCTTTGA+TGG 0.383429 2:+27769452 MsaT008075.1:CDS
AGAATTGATGTCACAACAAT+TGG 0.385231 2:+27769506 MsaT008075.1:CDS
CATTCTCAATTTGTGTTGTA+GGG 0.390206 2:-27768590 None:intergenic
TTTACTCCTCCAAGTTGGTT+AGG 0.398273 2:-27768483 None:intergenic
ACATGTCAACTTGGTTTCAA+TGG 0.402871 2:+27769734 MsaT008075.1:CDS
CTACTTAGAGCTGCAACAAT+TGG 0.411814 2:+27767682 MsaT008075.1:CDS
ATCAAATAACCTTCAGGCTA+AGG 0.429025 2:+27769799 MsaT008075.1:CDS
AATTCAGTTCTGACGGCTAC+AGG 0.433952 2:-27766978 None:intergenic
CAATTGTTGCAGCTCTAAGT+AGG 0.455858 2:-27767681 None:intergenic
GGGGTGTAGATAGAACATTT+TGG 0.464905 2:-27768632 None:intergenic
CGTTCTCTAATGCAATCTCT+TGG 0.486499 2:+27767005 MsaT008075.1:CDS
CCTCCAAGTTGGTTAGGATC+AGG 0.487097 2:-27768477 None:intergenic
AGTCGTTTGTCCTTCTTGGA+TGG 0.492248 2:+27767199 MsaT008075.1:intron
AACAAAGGAGAAATTGAGCT+TGG 0.495316 2:+27767958 MsaT008075.1:CDS
GTGTTTGAAACAGGCCTCAT+TGG 0.497033 2:-27768513 None:intergenic
AATTGAGGTGGAGAAGTTCC+AGG 0.500124 2:-27768450 None:intergenic
AATTGTGTTGGTGTGATTTG+AGG 0.500733 2:-27768564 None:intergenic
TCTTCTCACTGCTTCCTGGA+AGG 0.503286 2:-27771661 None:intergenic
GTTGTAGGGAATAATTGTGT+TGG 0.512655 2:-27768576 None:intergenic
TTTACAGGAAGCAAGGATCA+AGG 0.513199 2:+27767833 MsaT008075.1:intron
AGAGATGAGTATTCAGGAGT+AGG 0.522961 2:-27768408 None:intergenic
AGAAGATGAATCAATGGTAG+TGG 0.525040 2:+27769632 MsaT008075.1:CDS
TGCGCAGGCGGATATTCAAA+CGG 0.526338 2:+27768275 MsaT008075.1:intron
TTCATCAGAAGATGAATCAA+TGG 0.532346 2:+27769626 MsaT008075.1:CDS
CTGAGTAATCCTTAGCCTGA+AGG 0.534544 2:-27769808 None:intergenic
TCACCTGATCCTAACCAACT+TGG 0.535317 2:+27768474 MsaT008075.1:CDS
TCATGATCAACATGTCAACT+TGG 0.538074 2:+27769725 MsaT008075.1:CDS
GGCAATTGTTGAAGTTGAAG+AGG 0.545458 2:-27768543 None:intergenic
TGATGAAGTAAATCATTCCC+TGG 0.552419 2:-27769780 None:intergenic
AATTGTTGCAGCTCTAAGTA+GGG 0.554645 2:-27767680 None:intergenic
GAATATTTACTCCTCCAAGT+TGG 0.557510 2:-27768488 None:intergenic
CCTGATCCTAACCAACTTGG+AGG 0.557669 2:+27768477 MsaT008075.1:CDS
GTTTATGCAGATAAGTGAAT+GGG 0.559981 2:+27771629 MsaT008075.1:intron
TTTGAAACAGGCCTCATTGG+TGG 0.560996 2:-27768510 None:intergenic
TTAGGATCAGGTGAAAATTG+AGG 0.561439 2:-27768465 None:intergenic
TTCCATACTGATAACAGCTA+AGG 0.563069 2:+27769431 MsaT008075.1:CDS
GAGGTTGATGTTGATGAGAA+GGG 0.565051 2:-27768653 None:intergenic
TGAGGTTGATGTTGATGAGA+AGG 0.576774 2:-27768654 None:intergenic
ACACTCCCTAAAGAAGAACT+TGG 0.577549 2:-27767250 None:intergenic
ACAAATACAAATCATGCACC+AGG 0.579495 2:+27769762 MsaT008075.1:CDS
ATGAGATCACTATCAACAGC+AGG 0.579733 2:+27768381 MsaT008075.1:CDS
CTTAGAGCATTACTTCCTCA+AGG 0.580881 2:+27768921 MsaT008075.1:CDS
GGTTTATGCAGATAAGTGAA+TGG 0.584114 2:+27771628 MsaT008075.1:intron
CAGTTCTGACGGCTACAGGA+AGG 0.586512 2:-27766974 None:intergenic
CTTCAGGCTAAGGATTACTC+AGG 0.589180 2:+27769809 MsaT008075.1:CDS
ATGATGAAGTTGATTACTCG+AGG 0.589833 2:-27768847 None:intergenic
GGATCAGGTGAAAATTGAGG+TGG 0.596720 2:-27768462 None:intergenic
CAAGAGATTGCATTAGAGAA+CGG 0.600137 2:-27767004 None:intergenic
GTACGTACCTTTGTTCCTTG+AGG 0.603059 2:-27768936 None:intergenic
AGTTCTGACGGCTACAGGAA+GGG 0.603804 2:-27766973 None:intergenic
AGGTTGATGTTGATGAGAAG+GGG 0.605846 2:-27768652 None:intergenic
ACGGATAAATTCAGTTCTGA+CGG 0.607682 2:-27766985 None:intergenic
ATTGTAGAAACCATCCAAGA+AGG 0.610273 2:-27767209 None:intergenic
ATTGAAGATGAAGATGATGA+AGG 0.610501 2:-27768360 None:intergenic
TCAACCTCAGCAAAATTATG+TGG 0.614391 2:+27768668 MsaT008075.1:CDS
TGATTCCTAAAAGCTAGTCC+AGG 0.617478 2:-27767653 None:intergenic
GACTTGCAAGTGAACATGAT+GGG 0.621908 2:+27769654 MsaT008075.1:CDS
TGATGAAGTTGATTACTCGA+GGG 0.623889 2:-27768846 None:intergenic
ATTACTTCCTCAAGGAACAA+AGG 0.632442 2:+27768929 MsaT008075.1:CDS
CAGAAGCTAGTGCATTTGGA+AGG 0.633413 2:+27768697 MsaT008075.1:CDS
GCAGATAAGTGAATGGGACG+AGG 0.636589 2:+27771635 MsaT008075.1:intron
AATGAGAGATCGAAATCAAG+CGG 0.637236 2:+27768818 MsaT008075.1:CDS
TAAAAGCTAGTCCAGGAACA+CGG 0.640221 2:-27767646 None:intergenic
ATATTCAACATAAATCCACC+TGG 0.642233 2:+27768432 MsaT008075.1:CDS
GATGAAGTTGATTACTCGAG+GGG 0.643129 2:-27768845 None:intergenic
CCAGGAAGCAGTGAGAAGAG+TGG 0.648622 2:+27771665 MsaT008075.1:CDS
GGTTGATGTTGATGAGAAGG+GGG 0.653653 2:-27768651 None:intergenic
GAAGATGAAGATGATGAAGG+TGG 0.654902 2:-27768357 None:intergenic
CGTTACATGCAAAACTCGAA+CGG 0.655300 2:-27769595 None:intergenic
ACCTATATACCACATATGGA+AGG 0.656132 2:+27766942 None:intergenic
AATACAGACACAATTCTACC+AGG 0.662180 2:+27767730 MsaT008075.1:CDS
GGACTTGCAAGTGAACATGA+TGG 0.683370 2:+27769653 MsaT008075.1:CDS
GAGTAAATATTCCACCAATG+AGG 0.688300 2:+27768499 MsaT008075.1:CDS
TGACTTGATACAGTCCCAAG+TGG 0.713861 2:+27771692 MsaT008075.1:CDS
TGAGGTGGAGAAGTTCCAGG+TGG 0.714377 2:-27768447 None:intergenic
CAAATACAAATCATGCACCA+GGG 0.722090 2:+27769763 MsaT008075.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 27766957 27771728 27766957 ID=MsaG008075
Chr2 mRNA 27766957 27771728 27766957 ID=MsaT008075.1;Parent=MsaG008075
Chr2 exon 27766957 27767072 27766957 ID=MsaT008075.1.exon1;Parent=MsaT008075.1
Chr2 CDS 27766957 27767072 27766957 ID=cds.MsaT008075.1;Parent=MsaT008075.1
Chr2 exon 27767201 27767326 27767201 ID=MsaT008075.1.exon2;Parent=MsaT008075.1
Chr2 CDS 27767201 27767326 27767201 ID=cds.MsaT008075.1;Parent=MsaT008075.1
Chr2 exon 27767646 27767751 27767646 ID=MsaT008075.1.exon3;Parent=MsaT008075.1
Chr2 CDS 27767646 27767751 27767646 ID=cds.MsaT008075.1;Parent=MsaT008075.1
Chr2 exon 27767840 27767854 27767840 ID=MsaT008075.1.exon4;Parent=MsaT008075.1
Chr2 CDS 27767840 27767854 27767840 ID=cds.MsaT008075.1;Parent=MsaT008075.1
Chr2 exon 27767937 27767999 27767937 ID=MsaT008075.1.exon5;Parent=MsaT008075.1
Chr2 CDS 27767937 27767999 27767937 ID=cds.MsaT008075.1;Parent=MsaT008075.1
Chr2 exon 27768282 27768950 27768282 ID=MsaT008075.1.exon6;Parent=MsaT008075.1
Chr2 CDS 27768282 27768950 27768282 ID=cds.MsaT008075.1;Parent=MsaT008075.1
Chr2 exon 27769420 27769830 27769420 ID=MsaT008075.1.exon7;Parent=MsaT008075.1
Chr2 CDS 27769420 27769830 27769420 ID=cds.MsaT008075.1;Parent=MsaT008075.1
Chr2 exon 27771639 27771728 27771639 ID=MsaT008075.1.exon8;Parent=MsaT008075.1
Chr2 CDS 27771639 27771728 27771639 ID=cds.MsaT008075.1;Parent=MsaT008075.1
Gene Sequence

>MsaT008075.1

ATGGAAGGTGTCTTTTCCCTTCCTGTAGCCGTCAGAACTGAATTTATCCGTTCTCTAATGCAATCTCTTGGATGCTCTCACATTTGTCTTTGGTCATATGATACCATATTATCAAATCGTTTGTCCTTCTTGGATGGTTTCTACAATGTGATAAACGATCAATTACCAAGTTCTTCTTTAGGGAGTGTAGCACAACAGCTTTTTAATCAATACAGGATTTTATCATTTGATGTCAATGATGACCGTGTTCCTGGACTAGCTTTTAGGAATCAACGTCCCTACTTAGAGCTGCAACAATTGGAACTTCTTACACTGTCATCAACAGAAATACAGACACAATTCTACCAGGAAGCAAGGATCAAGACTGTTGTTTTCATGGGGTGCAACAAAGGAGAAATTGAGCTTGGTTTCTTAAATATGTCTCAAGCGGATATTCAAACGGCACTTAGCAGTCTATTTCCTGAAGATTTTTCAAGACAGACACAACAAATTAATCAAAATCCACCTTCATCATCTTCATCTTCAATGAGATCACTATCAACAGCAGGTAGTCCTACTCCTGAATACTCATCTCTCATATTCAACATAAATCCACCTGGAACTTCTCCACCTCAATTTTCACCTGATCCTAACCAACTTGGAGGAGTAAATATTCCACCAATGAGGCCTGTTTCAAACACATTACTACCTCTTCAACTTCAACAATTGCCTCAAATCACACCAACACAATTATTCCCTACAACACAAATTGAGAATGATGTAATAATGAGAGCAATCCAAAATGTTCTATCTACACCCCCTTCTCATCAACATCAACCTCAGCAAAATTATGTGGCACATCCAGAAGCTAGTGCATTTGGAAGGTATAGACATGATAAAAGTCCTAATATAGGGTCAAATTTTAGAAGACAAAGTTTGATGAAGAGATCATTTGCATTCTTTAGAAGCTTGAATTTGATGAGAATGAGAGATCGAAATCAAGCGGCGCGCCCCTCGAGTAATCAACTTCATCATATGATATCAGAGCGACGAAGACGAGAGAAGCTTAATGAGAATTTTCAAGCACTTAGAGCATTACTTCCTCAAGGAACAAAGAAAGACAAAGCTTCCATACTGATAACAGCTAAGGAGACATTGAGATCTTTGATGGCTGAAATTGACAAACTAAGCAAAAGAAATCAAGAATTGATGTCACAACAATTGGCAGCAGCAAATAAAGAATCTACAACAACTGAAGAAATTATCAAATTCTCATCAAATGAAAGATTAACCGTTCGAGTTTTGCATGTAACGGGGTCGAGTTCATCAGAAGATGAATCAATGGTAGTGGACTTGCAAGTGAACATGATGGGACAAATTTCTCAAGTTGATGTATTGATTCGATTATTGGAATTCTTAAATCATGATCAACATGTCAACTTGGTTTCAATGGATGCAACAAATACAAATCATGCACCAGGGAATGATTTACTTCATCAAATAACCTTCAGGCTAAGGATTACTCAGATAAGTGAATGGGACGAGGAAGCCTTCCAGGAAGCAGTGAGAAGAGTGGTTGCTGACTTGATACAGTCCCAAGTGGACCAAAATATATGA
Protein sequence

>MsaT008075.1

MEGVFSLPVAVRTEFIRSLMQSLGCSHICLWSYDTILSNRLSFLDGFYNVINDQLPSSSLGSVAQQLFNQYRILSFDVNDDRVPGLAFRNQRPYLELQQLELLTLSSTEIQTQFYQEARIKTVVFMGCNKGEIELGFLNMSQADIQTALSSLFPEDFSRQTQQINQNPPSSSSSSMRSLSTAGSPTPEYSSLIFNINPPGTSPPQFSPDPNQLGGVNIPPMRPVSNTLLPLQLQQLPQITPTQLFPTTQIENDVIMRAIQNVLSTPPSHQHQPQQNYVAHPEASAFGRYRHDKSPNIGSNFRRQSLMKRSFAFFRSLNLMRMRDRNQAARPSSNQLHHMISERRRREKLNENFQALRALLPQGTKKDKASILITAKETLRSLMAEIDKLSKRNQELMSQQLAAANKESTTTEEIIKFSSNERLTVRVLHVTGSSSSEDESMVVDLQVNMMGQISQVDVLIRLLEFLNHDQHVNLVSMDATNTNHAPGNDLLHQITFRLRITQISEWDEEAFQEAVRRVVADLIQSQVDQNI*