AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0210470

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0210470 MtrunA17_Chr2g0308901 96.020 402 13 1 1 402 1 399 0.0 795
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0210470 AT2G31955.5 73.632 402 94 2 1 402 1 390 0.0 602
Msa0210470 AT2G31955.2 73.632 402 94 2 1 402 1 390 0.0 602
Msa0210470 AT2G31955.1 73.632 402 94 2 1 402 1 390 0.0 602
Msa0210470 AT2G31955.3 71.642 402 94 3 1 402 1 382 0.0 578
Msa0210470 AT2G31955.4 72.238 353 86 2 1 353 1 341 0.0 516
Msa0210470 AT2G31955.6 72.238 353 86 2 1 353 1 341 0.0 516

Find 107 sgRNAs with CRISPR-Local

Find 2 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCTGTTGTATTTATATTTA+TGG 0.057263 2_1:-50574180 Msa0210470:three_prime_UTR
AATTGGCGAATGAATGAATT+TGG 0.174327 2_1:+50578376 None:intergenic
GTTTCTTCCTATATAGTTAT+AGG 0.225090 2_1:+50578476 None:intergenic
AACTTAAAAGTTTGTTTGTT+TGG 0.273416 2_1:-50576485 Msa0210470:CDS
ATGATTAATCTCACTTAGTA+TGG 0.273747 2_1:-50574349 Msa0210470:three_prime_UTR
GACTACTAATGGTATTGTTT+TGG 0.278426 2_1:-50577372 Msa0210470:CDS
GCTGATCTGTTTGTGAGCTC+TGG 0.292159 2_1:-50577500 Msa0210470:CDS
TCAATAAACCGAATATTAAT+AGG 0.310881 2_1:+50576833 None:intergenic
TCAGATACAGAATTGTCTTT+TGG 0.312038 2_1:+50577677 None:intergenic
GGAATGGAATTTGAATTAGA+TGG 0.319713 2_1:+50578341 None:intergenic
TATTCATATTCATTTATAAC+AGG 0.332698 2_1:+50574109 None:intergenic
ACGCTGTAGATTACAAATTC+TGG 0.342022 2_1:+50577775 None:intergenic
CTGATCTGTTTGTGAGCTCT+GGG 0.344952 2_1:-50577499 Msa0210470:CDS
GTTTCTTCCTATAACTATAT+AGG 0.350600 2_1:-50578483 Msa0210470:five_prime_UTR
GTGAAAAGCCTATTAATATT+CGG 0.350670 2_1:-50576841 Msa0210470:CDS
CTCTCTCTTTCTCTCTCTCT+CGG 0.361270 2_1:-50578505 Msa0210470:five_prime_UTR
TCCCTCTATCGTGAAATTCT+TGG 0.369394 2_1:+50576592 None:intergenic
AAATTCATTCATTCGCCAAT+TGG 0.386482 2_1:-50578374 Msa0210470:CDS
GACCAAACACATACCTTAAC+AGG 0.386534 2_1:+50577194 None:intergenic
AGCTTATGACGAGGCGTAAA+GGG 0.387132 2_1:-50577268 Msa0210470:CDS
AAATTCTTGGCCGTCTCTGT+TGG 0.392562 2_1:+50576605 None:intergenic
GTGCGAGTAACATAGCAAAT+TGG 0.407936 2_1:-50574158 Msa0210470:three_prime_UTR
TATCCACCAATATGTATCAT+AGG 0.410809 2_1:+50574574 None:intergenic
GTCATAAGCTCAAACTTTGC+CGG 0.411698 2_1:+50577281 None:intergenic
GATATGTTGGTAGATTCATT+TGG 0.412506 2_1:-50577656 Msa0210470:CDS
TCTATATCCTTTCTAACAGT+TGG 0.415890 2_1:+50577446 None:intergenic
ACATAGCGAAGACAGCAAAT+AGG 0.420441 2_1:-50574597 Msa0210470:CDS
ATGATACATATTGGTGGATA+AGG 0.428595 2_1:-50574571 Msa0210470:intron
ACATTGTCCATGACTACTAA+TGG 0.433719 2_1:-50577383 Msa0210470:CDS
AATAGGCCTATGATACATAT+TGG 0.434423 2_1:-50574580 Msa0210470:CDS
TCGGGTTTCGTCAAAACCTT+AGG 0.444270 2_1:+50577536 None:intergenic
TTCACTAATATACTCATCAA+TGG 0.446466 2_1:+50574228 None:intergenic
CCTTGGTTATAATCCTGTTA+AGG 0.446699 2_1:-50577207 Msa0210470:intron
TTCAACAAAGTATAAGCTAA+TGG 0.446912 2_1:+50574302 None:intergenic
AATCTACAGCGTTTATTGAA+AGG 0.447566 2_1:-50577764 Msa0210470:CDS
ACCATAAATATAAATACAAC+AGG 0.448720 2_1:+50574179 None:intergenic
GTGCAGAGGATCATGAGCTT+AGG 0.449382 2_1:-50575190 Msa0210470:CDS
ATCTAATTCAAATTCCATTC+CGG 0.449978 2_1:-50578339 Msa0210470:intron
AGTCCACATTCTTTGAGCTT+CGG 0.452264 2_1:+50577338 None:intergenic
ATCAGCCAATCTCAGAATCT+CGG 0.453284 2_1:+50577517 None:intergenic
TAACAGAGAGATGTAATTTG+AGG 0.457781 2_1:-50577604 Msa0210470:CDS
AAATCTAGTGATTATTCTAC+AGG 0.460645 2_1:-50577740 Msa0210470:CDS
AATTCTTGGCCGTCTCTGTT+GGG 0.464357 2_1:+50576606 None:intergenic
TTTGGTTGGGGCTGCTCTGG+TGG 0.466695 2_1:+50574409 None:intergenic
GGCCAAGAATTTCACGATAG+AGG 0.468045 2_1:-50576594 Msa0210470:CDS
GAAACCCGAGATTCTGAGAT+TGG 0.471374 2_1:-50577522 Msa0210470:CDS
TTCACGATAGAGGGACATAA+AGG 0.475003 2_1:-50576584 Msa0210470:CDS
GAATGGAATTTGAATTAGAT+GGG 0.476225 2_1:+50578342 None:intergenic
TTCCAAACATTCCCATCAAA+AGG 0.478376 2_1:+50576803 None:intergenic
GATGGGTTGAAGCGACCAAT+TGG 0.481463 2_1:+50578359 None:intergenic
TGCAGAGGATCATGAGCTTA+GGG 0.483029 2_1:-50575189 Msa0210470:CDS
AACAATACCATTAGTAGTCA+TGG 0.484370 2_1:+50577376 None:intergenic
AATAAAGAACGAACTGAAGC+AGG 0.489879 2_1:+50578434 None:intergenic
TGATTAATCTCACTTAGTAT+GGG 0.494101 2_1:-50574348 Msa0210470:three_prime_UTR
TCACTAATATACTCATCAAT+GGG 0.499198 2_1:+50574229 None:intergenic
GAGCTTATGACGAGGCGTAA+AGG 0.500222 2_1:-50577269 Msa0210470:CDS
CGAGCTTACTCCTACTCCTA+AGG 0.503760 2_1:-50577552 Msa0210470:CDS
ATTAATGCCGCCGTAGACCT+TGG 0.513408 2_1:-50577224 Msa0210470:CDS
GTAAGCTCGACACCCTCTGC+TGG 0.517320 2_1:+50577566 None:intergenic
CAATTCTGTATCTGATATGT+TGG 0.517689 2_1:-50577669 Msa0210470:CDS
TCAGCCAATCTCAGAATCTC+GGG 0.523898 2_1:+50577518 None:intergenic
AGCATCGGCCGAGATCTTCA+TGG 0.525588 2_1:-50574372 Msa0210470:three_prime_UTR
TTGTTTGTTTGGTCCTTCAG+AGG 0.528419 2_1:-50576474 Msa0210470:intron
TGGAGAACCAACTGTTAGAA+AGG 0.537213 2_1:-50577453 Msa0210470:CDS
TCTAACAGTTGGTTCTCCAC+CGG 0.540921 2_1:+50577457 None:intergenic
GTTAATAAAATACGGTTGAC+CGG 0.541295 2_1:-50577476 Msa0210470:CDS
TAGAGGTCTATTTACCGGAA+TGG 0.541768 2_1:+50578325 None:intergenic
CTTCGCTATGTCAAACATAC+CGG 0.547348 2_1:+50574609 None:intergenic
TTTGAATTGTCGAGTTTGAA+GGG 0.548888 2_1:-50577413 Msa0210470:CDS
TCATTATCAAACAGGTGAAA+CGG 0.549043 2_1:-50576658 Msa0210470:intron
GCCAAGAATTTCACGATAGA+GGG 0.549403 2_1:-50576593 Msa0210470:CDS
GCTCTGGGGTTAATAAAATA+CGG 0.549498 2_1:-50577484 Msa0210470:CDS
ATTATTTGGTTTAGGTGAAG+AGG 0.550194 2_1:-50574648 Msa0210470:intron
TGTTGGTAGATTCATTTGGA+AGG 0.559042 2_1:-50577652 Msa0210470:CDS
CTTCCGAAGCTCAAAGAATG+TGG 0.561608 2_1:-50577341 Msa0210470:CDS
AGGAAGAAACCTTCACATGC+CGG 0.562496 2_1:-50574628 Msa0210470:CDS
TTAATCATCCATGAAGATCT+CGG 0.563914 2_1:+50574364 None:intergenic
AGGATTATAACCAAGGTCTA+CGG 0.564246 2_1:+50577214 None:intergenic
TAGTCTAGACACGCTTGTAC+CGG 0.572701 2_1:-50577300 Msa0210470:CDS
GTATCCAACATCTCTGAGTA+CGG 0.578489 2_1:+50576764 None:intergenic
ATCCTCTGCACCATTCCGCA+AGG 0.586417 2_1:+50575202 None:intergenic
AAACAGTTTGAATTGAGCAT+CGG 0.587932 2_1:-50574387 Msa0210470:three_prime_UTR
CTCAGAGATGTTGGATACTG+TGG 0.588238 2_1:-50576759 Msa0210470:intron
TGTACCGTACTCAGAGATGT+TGG 0.591641 2_1:-50576768 Msa0210470:CDS
AGGCCTATGATACATATTGG+TGG 0.592795 2_1:-50574577 Msa0210470:CDS
TTAAGAGATCCCTTGCGGAA+TGG 0.595019 2_1:-50575212 Msa0210470:CDS
GTCAATTGTGTTGTAATGCG+TGG 0.598431 2_1:-50576905 Msa0210470:CDS
TTCGTCAAAACCTTAGGAGT+AGG 0.599860 2_1:+50577542 None:intergenic
AGATTGCGACTACTAGCAGA+TGG 0.602677 2_1:-50576509 Msa0210470:CDS
GATTAATCTCACTTAGTATG+GGG 0.605799 2_1:-50574347 Msa0210470:three_prime_UTR
ACTGTATTACATACCTCTGA+AGG 0.605914 2_1:+50576461 None:intergenic
TCAAACATACCGGCATGTGA+AGG 0.614582 2_1:+50574619 None:intergenic
TCAGTATTGTATGCCAGCAG+AGG 0.615394 2_1:-50577579 Msa0210470:CDS
TCCCTTGCGGAATGGTGCAG+AGG 0.624746 2_1:-50575204 Msa0210470:CDS
TCAGGATCACCCAACAGAGA+CGG 0.630209 2_1:-50576615 Msa0210470:CDS
CAGTATTGTATGCCAGCAGA+GGG 0.630564 2_1:-50577578 Msa0210470:CDS
TCCTCTGCACCATTCCGCAA+GGG 0.635021 2_1:+50575203 None:intergenic
AAGAACGAACTGAAGCAGGA+AGG 0.642693 2_1:+50578438 None:intergenic
TCTCTATCGATATCATCATG+TGG 0.667224 2_1:-50578409 Msa0210470:exon
CAAAGTTTGAGCTTATGACG+AGG 0.670916 2_1:-50577277 Msa0210470:CDS
ATCATGTGATTCATTCTCTG+AGG 0.673807 2_1:-50577705 Msa0210470:CDS
TGATCTGTTTGTGAGCTCTG+GGG 0.675067 2_1:-50577498 Msa0210470:CDS
CCTTAACAGGATTATAACCA+AGG 0.675549 2_1:+50577207 None:intergenic
AATAAAATACGGTTGACCGG+TGG 0.686624 2_1:-50577473 Msa0210470:CDS
TAAGCTTAAGAGATCCCTTG+CGG 0.704249 2_1:-50575217 Msa0210470:CDS
ATTATAACCAAGGTCTACGG+CGG 0.709225 2_1:+50577217 None:intergenic
TAGGGAGATAATCAGCGCAG+CGG 0.727668 2_1:-50575171 Msa0210470:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGAGTTGAGTTTTGACGTGT+TGG + chr2_1:50574117-50574136 None:intergenic 40.0%
CTCTCTCTTTCTCTCTCTCT+CGG - chr2_1:50574135-50574154 Msa0210470:three_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
chr2_1 gene 50574092 50578570 50574092 ID=Msa0210470;Name=Msa0210470
chr2_1 mRNA 50574092 50578570 50574092 ID=Msa0210470-mRNA-1;Parent=Msa0210470;Name=Msa0210470-mRNA-1;_AED=0.10;_eAED=0.10;_QI=156|1|1|1|0.57|0.5|8|358|402
chr2_1 exon 50574092 50574278 50574092 ID=Msa0210470-mRNA-1:exon:13960;Parent=Msa0210470-mRNA-1
chr2_1 exon 50574299 50574468 50574299 ID=Msa0210470-mRNA-1:exon:13959;Parent=Msa0210470-mRNA-1
chr2_1 exon 50574572 50574656 50574572 ID=Msa0210470-mRNA-1:exon:13958;Parent=Msa0210470-mRNA-1
chr2_1 exon 50575172 50575240 50575172 ID=Msa0210470-mRNA-1:exon:13957;Parent=Msa0210470-mRNA-1
chr2_1 exon 50576475 50576666 50576475 ID=Msa0210470-mRNA-1:exon:13956;Parent=Msa0210470-mRNA-1
chr2_1 exon 50576760 50576927 50576760 ID=Msa0210470-mRNA-1:exon:13955;Parent=Msa0210470-mRNA-1
chr2_1 exon 50577208 50577828 50577208 ID=Msa0210470-mRNA-1:exon:13954;Parent=Msa0210470-mRNA-1
chr2_1 exon 50578340 50578570 50578340 ID=Msa0210470-mRNA-1:exon:13953;Parent=Msa0210470-mRNA-1
chr2_1 five_prime_UTR 50578415 50578570 50578415 ID=Msa0210470-mRNA-1:five_prime_utr;Parent=Msa0210470-mRNA-1
chr2_1 CDS 50578340 50578414 50578340 ID=Msa0210470-mRNA-1:cds;Parent=Msa0210470-mRNA-1
chr2_1 CDS 50577208 50577828 50577208 ID=Msa0210470-mRNA-1:cds;Parent=Msa0210470-mRNA-1
chr2_1 CDS 50576760 50576927 50576760 ID=Msa0210470-mRNA-1:cds;Parent=Msa0210470-mRNA-1
chr2_1 CDS 50576475 50576666 50576475 ID=Msa0210470-mRNA-1:cds;Parent=Msa0210470-mRNA-1
chr2_1 CDS 50575172 50575240 50575172 ID=Msa0210470-mRNA-1:cds;Parent=Msa0210470-mRNA-1
chr2_1 CDS 50574573 50574656 50574573 ID=Msa0210470-mRNA-1:cds;Parent=Msa0210470-mRNA-1
chr2_1 three_prime_UTR 50574572 50574572 50574572 ID=Msa0210470-mRNA-1:three_prime_utr;Parent=Msa0210470-mRNA-1
chr2_1 three_prime_UTR 50574299 50574468 50574299 ID=Msa0210470-mRNA-1:three_prime_utr;Parent=Msa0210470-mRNA-1
chr2_1 three_prime_UTR 50574092 50574278 50574092 ID=Msa0210470-mRNA-1:three_prime_utr;Parent=Msa0210470-mRNA-1
Gene Sequence

>Msa0210470

ATGTGGCGCTACTTTTCCAAATTCATTCATTCGCCAATTGGTCGCTTCAACCCATCTAATTCAAATTCCATTCCGGTGAATTTTGAGATGGGATCTTACTGTGCTACCAGAATTTGTAATCTACAGCGTTTATTGAAAGGAAAATCTAGTGATTATTCTACAGGAGCTTCTGTAACATCATGTGATTCATTCTCTGAGGAAAAGCCAAAAGACAATTCTGTATCTGATATGTTGGTAGATTCATTTGGAAGGATTCATACTTATTTGAGAATATCATTAACAGAGAGATGTAATTTGAGGTGTCAGTATTGTATGCCAGCAGAGGGTGTCGAGCTTACTCCTACTCCTAAGGTTTTGACGAAACCCGAGATTCTGAGATTGGCTGATCTGTTTGTGAGCTCTGGGGTTAATAAAATACGGTTGACCGGTGGAGAACCAACTGTTAGAAAGGATATAGAAGATATATGTTTTGAATTGTCGAGTTTGAAGGGATTGAAGACATTGTCCATGACTACTAATGGTATTGTTTTGGCTAGAAAGCTTCCGAAGCTCAAAGAATGTGGACTTGATTCTTTGAACATTAGTCTAGACACGCTTGTACCGGCAAAGTTTGAGCTTATGACGAGGCGTAAAGGGCATGAAAAAGTAATGGATTCAATTAATGCCGCCGTAGACCTTGGTTATAATCCTGTTAAGGTCAATTGTGTTGTAATGCGTGGATTCAATGACGACGAAATCTGTGACTTTGTTGAGCTGACACGTGAAAAGCCTATTAATATTCGGTTTATTGAGTTCATGCCTTTTGATGGGAATGTTTGGAATGTCAAGAAACTTGTACCGTACTCAGAGATGTTGGATACTGTGGTGAAACGGTATCCTAGCTTAAAAAGAAATCAGGATCACCCAACAGAGACGGCCAAGAATTTCACGATAGAGGGACATAAAGGACAAGTTTCATTTATCACATCAATGACCGAGCATTTTTGCGCTGGTTGCAATAGATTGCGACTACTAGCAGATGGAAACTTAAAAGTTTGTTTGTTTGGTCCTTCAGAGGTAAGCTTAAGAGATCCCTTGCGGAATGGTGCAGAGGATCATGAGCTTAGGGAGATAATCAGCGCAGCGGTGAAGAGGAAGAAACCTTCACATGCCGGTATGTTTGACATAGCGAAGACAGCAAATAGGCCTATGATACATATTGGTGGATAA
Protein sequence

>Msa0210470

MWRYFSKFIHSPIGRFNPSNSNSIPVNFEMGSYCATRICNLQRLLKGKSSDYSTGASVTSCDSFSEEKPKDNSVSDMLVDSFGRIHTYLRISLTERCNLRCQYCMPAEGVELTPTPKVLTKPEILRLADLFVSSGVNKIRLTGGEPTVRKDIEDICFELSSLKGLKTLSMTTNGIVLARKLPKLKECGLDSLNISLDTLVPAKFELMTRRKGHEKVMDSINAAVDLGYNPVKVNCVVMRGFNDDEICDFVELTREKPINIRFIEFMPFDGNVWNVKKLVPYSEMLDTVVKRYPSLKRNQDHPTETAKNFTIEGHKGQVSFITSMTEHFCAGCNRLRLLADGNLKVCLFGPSEVSLRDPLRNGAEDHELREIISAAVKRKKPSHAGMFDIAKTANRPMIHIGG*