AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG034646

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034646 MtrunA17_Chr6g0488451 84.752 282 33 1 68 339 87 368 8.02e-178 497
MsaG034646 MtrunA17_Chr7g0256351 66.319 288 76 3 68 334 91 378 6.13e-128 371
MsaG034646 MtrunA17_Chr6g0488421 43.333 120 53 2 102 207 22 140 7.86e-24 102
MsaG034646 MtrunA17_Chr2g0334051 86.667 45 6 0 5 49 317 361 2.80e-18 84.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034646 AT5G56780.1 37.113 291 146 8 68 336 96 371 4.48e-48 169
MsaG034646 AT1G79650.3 79.545 44 9 0 5 48 302 345 3.45e-15 75.9
MsaG034646 AT1G79650.1 79.545 44 9 0 5 48 322 365 3.63e-15 76.3
MsaG034646 AT1G79650.2 79.545 44 9 0 5 48 316 359 4.31e-15 75.9
MsaG034646 AT1G79650.4 79.545 44 9 0 5 48 346 389 4.74e-15 75.9
MsaG034646 AT5G56770.1 45.000 80 26 2 71 150 139 200 7.23e-14 70.9
MsaG034646 AT4G26170.1 41.509 106 42 4 231 335 307 393 7.28e-13 69.7
MsaG034646 AT1G16190.1 70.455 44 13 0 5 48 319 362 1.21e-12 68.6
MsaG034646 AT1G16190.2 70.455 44 13 0 5 48 296 339 1.38e-12 68.2
MsaG034646 AT5G38470.1 70.000 40 12 0 6 45 329 368 2.56e-11 64.7

Find 67 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCATCATGGTTAATATTT+TGG 0.117540 6:+115578977 None:intergenic
TATTATATGTGGAATTATTT+TGG 0.146552 6:-115578899 MsaT034646.1:CDS
GGCAACATGCTTGATTTAAT+TGG 0.190041 6:+115579269 None:intergenic
TAAAATTAGTGGAGTGATTT+TGG 0.206198 6:-115579118 MsaT034646.1:CDS
AATTGGAAGGCTAGAGGATA+TGG 0.255886 6:-115586755 MsaT034646.1:CDS
ATCAATTATTTCTAATTAAT+AGG 0.256718 6:+115578790 None:intergenic
AATTCCACATATAATAGTTT+TGG 0.286040 6:+115578906 None:intergenic
TGTACAAAACAACCAGTTAA+AGG 0.287756 6:-115578862 MsaT034646.1:CDS
TGGTAGAAATGGAGCTCATT+TGG 0.329770 6:-115580083 MsaT034646.1:CDS
AGTGAAGGGTAGAAGTGATT+TGG 0.349328 6:+115579310 None:intergenic
CCAATTGCCTCCCGCTCAGC+TGG 0.353733 6:+115586772 None:intergenic
TCGGATTTGTTATCTTTCAT+AGG 0.354876 6:+115579248 None:intergenic
CTCCAATGTTATGGTAGAAA+TGG 0.355200 6:-115580094 MsaT034646.1:CDS
GAAACAATGACCGTCCCTTT+TGG 0.364941 6:+115580029 None:intergenic
ATTGACAGCCAACTACTTAC+AGG 0.365353 6:-115586677 MsaT034646.1:CDS
TGAATTTGAACACGCGAGAT+AGG 0.369579 6:+115579198 None:intergenic
AAAAGATGTCATGAACATAA+AGG 0.370970 6:-115578835 MsaT034646.1:CDS
CCAGCTGAGCGGGAGGCAAT+TGG 0.376085 6:-115586772 MsaT034646.1:CDS
ATTTGAATCTTCTCACCAAA+AGG 0.382515 6:-115580044 MsaT034646.1:CDS
GGTAGAAATGGAGCTCATTT+GGG 0.389475 6:-115580082 MsaT034646.1:CDS
TTTCATGAGATCTTTCTTCA+AGG 0.405599 6:-115580010 MsaT034646.1:CDS
ATGCTCAACAAAATCTCTTC+CGG 0.410898 6:-115579356 MsaT034646.1:CDS
CAATGTGACGCCAGCTGAGC+GGG 0.419880 6:-115586782 MsaT034646.1:CDS
GTCACATTGGATTTCACCAT+TGG 0.432892 6:+115586796 None:intergenic
TCCTCTTTGTGATTCTGACT+TGG 0.433383 6:+115579014 None:intergenic
TGTTTGCAAGGCATCTCCCT+TGG 0.436980 6:+115579460 None:intergenic
GGATCCCATCTATAAACAAT+TGG 0.438162 6:+115579983 None:intergenic
GAGCATTTCAAGAATATCAC+TGG 0.439053 6:+115579373 None:intergenic
GCCGCCATTGTCTGCTTCAT+CGG 0.439254 6:+115579229 None:intergenic
AAAGATGTCATGAACATAAA+GGG 0.444185 6:-115578834 MsaT034646.1:CDS
GAGAAGAATGGTAAAATTAG+TGG 0.448789 6:-115579129 MsaT034646.1:CDS
AGAGAGATCACCTGTGGTTG+TGG 0.451657 6:-115583405 MsaT034646.1:CDS
AATGGAGCTCATTTGGGAAA+TGG 0.456379 6:-115580076 MsaT034646.1:CDS
TAGGAAAAGCTGATAATGTA+AGG 0.463358 6:-115580123 MsaT034646.1:CDS
AGGACAAGACTCCAATGTTA+TGG 0.472021 6:-115580103 MsaT034646.1:CDS
TGAGTACATTTGATTATGCT+TGG 0.472258 6:-115579424 MsaT034646.1:CDS
AGACTCTCAACCACGGTTTG+TGG 0.479457 6:+115578946 None:intergenic
GCTTGGAACACAATTAATAA+CGG 0.491690 6:-115579407 MsaT034646.1:CDS
ATCTGAAAATGTTCTTGTGC+CGG 0.498102 6:+115579337 None:intergenic
CAGTTGAGATTCTGTTTGCA+AGG 0.499330 6:+115579448 None:intergenic
TGGCTGTCAATTGCTCATCC+TGG 0.502845 6:+115586689 None:intergenic
CCTTCACTCAAAAGAAAGTA+GGG 0.503569 6:-115579295 MsaT034646.1:CDS
CTCCATTTCTACCATAACAT+TGG 0.504477 6:+115580092 None:intergenic
TTTGAATCTTCTCACCAAAA+GGG 0.504759 6:-115580043 MsaT034646.1:CDS
GTGGAAGATCTTCAGCATCA+TGG 0.509588 6:+115578965 None:intergenic
CCCTTCACTCAAAAGAAAGT+AGG 0.510670 6:-115579296 MsaT034646.1:CDS
ATCACCAAAACTATTATATG+TGG 0.518025 6:-115578910 MsaT034646.1:CDS
CCGCTCAGCTGGCGTCACAT+TGG 0.531544 6:+115586783 None:intergenic
ATTGGAAGGCTAGAGGATAT+GGG 0.547991 6:-115586754 MsaT034646.1:CDS
TTTGCTGACTCCACAACCAC+AGG 0.564660 6:+115583395 None:intergenic
AGAATATCACTGGGAAGCCG+TGG 0.590655 6:+115579383 None:intergenic
TGTGACGCCAGCTGAGCGGG+AGG 0.596519 6:-115586779 MsaT034646.1:CDS
GTTGAACAGATGCAGACCAA+GGG 0.612709 6:-115579476 MsaT034646.1:intron
TGTTGAACAGATGCAGACCA+AGG 0.614794 6:-115579477 MsaT034646.1:intron
TGATAGAGCCTCTGTCATAG+AGG 0.619305 6:-115586728 MsaT034646.1:CDS
AATCTTCTCACCAAAAGGGA+CGG 0.621847 6:-115580039 MsaT034646.1:CDS
TCCAAGTCAGAATCACAAAG+AGG 0.622707 6:-115579015 MsaT034646.1:CDS
ACACAATTAATAACGGTCCA+CGG 0.625427 6:-115579400 MsaT034646.1:CDS
CTGAGCGGGAGGCAATTGGA+AGG 0.629508 6:-115586768 MsaT034646.1:CDS
TTCTATTTGTACAAATACGC+CGG 0.636888 6:-115579088 MsaT034646.1:CDS
AGCATTTCAAGAATATCACT+GGG 0.640043 6:+115579374 None:intergenic
GGAGGCAATTGGAAGGCTAG+AGG 0.650540 6:-115586761 MsaT034646.1:CDS
CCAATGTGACGCCAGCTGAG+CGG 0.662384 6:-115586783 MsaT034646.1:CDS
TCCGATGAAGCAGACAATGG+CGG 0.674520 6:-115579230 MsaT034646.1:CDS
AAATCCGATGAAGCAGACAA+TGG 0.675612 6:-115579233 MsaT034646.1:CDS
TGAAGATCTTCCACAAACCG+TGG 0.691630 6:-115578956 MsaT034646.1:CDS
ATCAACAAGACTCTCAACCA+CGG 0.706583 6:+115578939 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 115578801 115586815 115578801 ID=MsaG034646
Chr6 mRNA 115578801 115586815 115578801 ID=MsaT034646.1;Parent=MsaG034646
Chr6 exon 115578801 115579181 115578801 ID=MsaT034646.1.exon5;Parent=MsaT034646.1
Chr6 CDS 115578801 115579181 115578801 ID=cds.MsaT034646.1;Parent=MsaT034646.1
Chr6 exon 115579211 115579489 115579211 ID=MsaT034646.1.exon4;Parent=MsaT034646.1
Chr6 CDS 115579211 115579489 115579211 ID=cds.MsaT034646.1;Parent=MsaT034646.1
Chr6 exon 115579982 115580142 115579982 ID=MsaT034646.1.exon3;Parent=MsaT034646.1
Chr6 CDS 115579982 115580142 115579982 ID=cds.MsaT034646.1;Parent=MsaT034646.1
Chr6 exon 115583382 115583425 115583382 ID=MsaT034646.1.exon2;Parent=MsaT034646.1
Chr6 CDS 115583382 115583425 115583382 ID=cds.MsaT034646.1;Parent=MsaT034646.1
Chr6 exon 115586661 115586815 115586661 ID=MsaT034646.1.exon1;Parent=MsaT034646.1
Chr6 CDS 115586661 115586815 115586661 ID=cds.MsaT034646.1;Parent=MsaT034646.1
Gene Sequence

>MsaT034646.1

ATGGTGAAATCCAATGTGACGCCAGCTGAGCGGGAGGCAATTGGAAGGCTAGAGGATATGGGATTTGATAGAGCCTCTGTCATAGAGGCATTTTTGGCTTGTGACCAGGATGAGCAATTGACAGCCAACTACTTACAGGAAAATGTCATCATAGAAGAGATCACCTGTGGTTGTGGAGTCAGCAAATCTAGTGAGAGAAGAAAAGCTGATAATGTAAGGACAAGACTCCAATGTTATGGTAGAAATGGAGCTCATTTGGGAAATGGCTGTTCTTCATTTGAATCTTCTCACCAAAAGGGACGGTCATTGTTTCATGAGATCTTTCTTCAAGGTTTTCCAATTGTTTATAGATGGGATCCTATGCAGACCAAGGGAGATGCCTTGCAAACAGAATCTCAACTGCTGAGTACATTTGATTATGCTTGGAACACAATTAATAACGGTCCACGGCTTCCCAGTGATATTCTTGAAATGCTCAACAAAATCTCTTCCGGCACAAGAACATTTTCAGATGTAGCCAAATCACTTCTACCCTTCACTCAAAAGAAAGTAGGGATACCAATTAAATCAAGCATGTTGCCTATGAAAGATAACAAATCCGATGAAGCAGACAATGGCGGCTACAATTTCCTATCTCGCATAGTTCAAGATACAACTGATTTTTCCATTGAGAAGAATGGTAAAATTAGTGGAGTGATTTTGGATGATGGTTCTATTTGTACAAATACGCCGGTCGAAAAAAGAGTTAGGTGTCAAAAACATAAAGGAATGAGAATAAGAACATCCAAGTCAGAATCACAAAGAGGAAATGCTTGTAGTTACCAAAATATTAACCATGATGCTGAAGATCTTCCACAAACCGTGGTTGAGAGTCTTGTTGATGATAATATCACCAAAACTATTATATGTGGAATTATTTTGGAAGATGGATCCACTTGTACAAAACAACCAGTTAAAGGAAGAAAAAGATGTCATGAACATAAAGGGAAGAGAATTCGTGCATTTGTTCCTATTAATTAG
Protein sequence

>MsaT034646.1

MVKSNVTPAEREAIGRLEDMGFDRASVIEAFLACDQDEQLTANYLQENVIIEEITCGCGVSKSSERRKADNVRTRLQCYGRNGAHLGNGCSSFESSHQKGRSLFHEIFLQGFPIVYRWDPMQTKGDALQTESQLLSTFDYAWNTINNGPRLPSDILEMLNKISSGTRTFSDVAKSLLPFTQKKVGIPIKSSMLPMKDNKSDEADNGGYNFLSRIVQDTTDFSIEKNGKISGVILDDGSICTNTPVEKRVRCQKHKGMRIRTSKSESQRGNACSYQNINHDAEDLPQTVVESLVDDNITKTIICGIILEDGSTCTKQPVKGRKRCHEHKGKRIRAFVPIN*