AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG034644


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034644 MtrunA17_Chr6g0488451 91.304 368 32 0 1 368 1 368 0.0 701
MsaG034644 MtrunA17_Chr7g0256351 73.458 373 88 2 2 363 6 378 0.0 549
MsaG034644 MtrunA17_Chr6g0488431 65.766 111 33 1 1 111 3 108 3.53e-43 145
MsaG034644 MtrunA17_Chr6g0488421 44.167 120 52 2 121 226 22 140 5.63e-25 106
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034644 AT5G56780.1 41.799 378 186 10 1 365 15 371 3.43e-85 266
MsaG034644 AT5G56780.1 36.364 110 65 3 258 367 337 441 9.42e-11 63.5
MsaG034644 AT5G56770.1 35.983 239 111 7 1 238 54 251 1.61e-34 128
MsaG034644 AT4G26170.1 33.708 178 96 4 191 364 234 393 2.67e-18 86.7
MsaG034644 AT4G26170.1 33.113 151 58 4 253 361 355 504 2.63e-12 68.6

Find 75 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACATCATGTTTAATATTT+TGG 0.103204 6:+115568779 None:intergenic
TAAAATTTGTGGAGTGATTT+TGG 0.187241 6:-115568920 MsaT034644.1:CDS
GGCAACATGCTTGATTTAAT+TGG 0.190041 6:+115569072 None:intergenic
CGAGTAGTTGTGGTTTATTT+AGG 0.242234 6:-115569949 MsaT034644.1:CDS
AATTGGTTTCAGATTCTTAT+TGG 0.254920 6:-115570135 MsaT034644.1:intron
ATCAATTATTTCTAATTAAT+AGG 0.256718 6:+115568592 None:intergenic
CCATAACCTGCCACAAAATT+CGG 0.260199 6:-115570055 MsaT034644.1:CDS
AATTCCACATATAATAGTTT+TGG 0.286040 6:+115568708 None:intergenic
GTTTCCCAATTGTTTATAGA+TGG 0.290530 6:-115569795 MsaT034644.1:CDS
TGGACAACCTTCCTTTCCTT+TGG 0.290544 6:+115570089 None:intergenic
TGTAGAAGACAACCAGTTAA+AGG 0.297867 6:-115568664 MsaT034644.1:CDS
TAATAATGGTCCACGGCGTC+CGG 0.310710 6:-115569196 MsaT034644.1:CDS
GTTGTATCTTGAACTATCTT+AGG 0.319694 6:+115568967 None:intergenic
TGGTAGAAATGGAGCTCATT+TGG 0.329770 6:-115569890 MsaT034644.1:CDS
CATAACCTGCCACAAAATTC+GGG 0.337276 6:-115570054 MsaT034644.1:CDS
AGTGAAGGGTAGAAGTGATT+TGG 0.349328 6:+115569113 None:intergenic
TTCTTATTGGTCCTTCTGAT+TGG 0.353606 6:-115570122 MsaT034644.1:CDS
TCGGATTTGTTATCTTTCAT+AGG 0.354876 6:+115569051 None:intergenic
CTCCAATGTTATGGTAGAAA+TGG 0.355200 6:-115569901 MsaT034644.1:CDS
AGCTCTGTCGACTAGCGGTT+TGG 0.358465 6:-115570007 MsaT034644.1:CDS
GAAACAATGAACGTCCCTTT+TGG 0.367640 6:+115569836 None:intergenic
AAAAGATGTCATGAACATAA+AGG 0.370970 6:-115568637 MsaT034644.1:CDS
ATGATTCTAGCTTCTCTCAT+TGG 0.373036 6:-115570728 MsaT034644.1:CDS
TTTCATGAAATCTTTCTTCA+AGG 0.381460 6:-115569817 MsaT034644.1:CDS
ATTTGAATCTTCTCACCAAA+AGG 0.382515 6:-115569851 MsaT034644.1:CDS
AGAATTTGAACACGCGAGAT+AGG 0.386624 6:+115569001 None:intergenic
GCTTGGAACACAATTAATAA+TGG 0.386741 6:-115569210 MsaT034644.1:CDS
GGAGCCCATCTATAAACAAT+TGG 0.397811 6:+115569790 None:intergenic
GCTCTGTCGACTAGCGGTTT+GGG 0.400184 6:-115570006 MsaT034644.1:CDS
GGTAGAAATGGAGCTCATTT+GGG 0.402941 6:-115569889 MsaT034644.1:CDS
AGACTCTCAGCCATTGTTTG+TGG 0.408188 6:+115568748 None:intergenic
TGAGTACATTTGATTATGCT+TGG 0.420463 6:-115569227 MsaT034644.1:CDS
TCTTATTGGTCCTTCTGATT+GGG 0.433564 6:-115570121 MsaT034644.1:CDS
TGTTTGCAAGGCATCTCCCT+TGG 0.436980 6:+115569263 None:intergenic
GCCGCCATTGTCTGCTTCAT+CGG 0.439254 6:+115569032 None:intergenic
AAAGATGTCATGAACATAAA+GGG 0.444185 6:-115568636 MsaT034644.1:CDS
GAGAAGAGTGGTAAAATTTG+TGG 0.450994 6:-115568931 MsaT034644.1:CDS
AATGGAGCTCATTTGGGTAA+TGG 0.455845 6:-115569883 MsaT034644.1:CDS
GTTAGGTGTCATGAACATAA+AGG 0.469142 6:-115568856 MsaT034644.1:CDS
TTTCCCAATTGTTTATAGAT+GGG 0.470064 6:-115569794 MsaT034644.1:CDS
AGGTTATGGATTCTATATCT+TGG 0.470568 6:+115570069 None:intergenic
AGAACAAGACTCCAATGTTA+TGG 0.472021 6:-115569910 MsaT034644.1:CDS
AATAATGGTCCACGGCGTCC+GGG 0.492605 6:-115569195 MsaT034644.1:CDS
ATACTCAACAAAATTTCATC+AGG 0.499424 6:-115569159 MsaT034644.1:CDS
GAGCCCATCTATAAACAATT+GGG 0.501782 6:+115569791 None:intergenic
CCTTCACTCAAAAGAAAGTA+GGG 0.503569 6:-115569098 MsaT034644.1:CDS
CTCCATTTCTACCATAACAT+TGG 0.504477 6:+115569899 None:intergenic
CTGCCACAAAATTCGGGGCC+GGG 0.504643 6:-115570048 MsaT034644.1:CDS
TTTGAATCTTCTCACCAAAA+GGG 0.504759 6:-115569850 MsaT034644.1:CDS
CCCTTCACTCAAAAGAAAGT+AGG 0.510670 6:-115569099 MsaT034644.1:CDS
CGACTTGCATCGAGTAGTTG+TGG 0.511029 6:-115569959 MsaT034644.1:CDS
AACTGGTTGTCTTCTACAAG+TGG 0.517479 6:+115568669 None:intergenic
GTCACCAAAACTATTATATG+TGG 0.524845 6:-115568712 MsaT034644.1:CDS
CCTGCCACAAAATTCGGGGC+CGG 0.531387 6:-115570049 MsaT034644.1:CDS
TAGTTGAGATTCTGTTTGCA+AGG 0.542581 6:+115569251 None:intergenic
GACTACTCCAAAGGAAAGGA+AGG 0.558934 6:-115570096 MsaT034644.1:CDS
TTCTAGCTTCTCTCATTGGA+AGG 0.570435 6:-115570724 MsaT034644.1:intron
GGGCCGGGAGTCTATGAGCT+CGG 0.581169 6:-115570033 MsaT034644.1:CDS
GAGTAGTCTTCCCAATCAGA+AGG 0.582452 6:+115570111 None:intergenic
GTTGAACAGATGCAGACCAA+GGG 0.612709 6:-115569279 MsaT034644.1:intron
GGAAGACTACTCCAAAGGAA+AGG 0.612749 6:-115570100 MsaT034644.1:CDS
TGAAGATCTTCCACAAACAA+TGG 0.618416 6:-115568758 MsaT034644.1:CDS
TGTTGAACAGATGCAGACCA+AGG 0.619532 6:-115569280 MsaT034644.1:intron
ACTCCGAGCTCATAGACTCC+CGG 0.622890 6:+115570030 None:intergenic
AGAATATCACCCGGACGCCG+TGG 0.625598 6:+115569186 None:intergenic
GATTGGGAAGACTACTCCAA+AGG 0.629735 6:-115570105 MsaT034644.1:CDS
TTCTATTTGTACAAATACGC+CGG 0.636888 6:-115568890 MsaT034644.1:CDS
GGAGTAGCTCTGTCGACTAG+CGG 0.648422 6:-115570012 MsaT034644.1:CDS
CACAACTACTCGATGCAAGT+CGG 0.662201 6:+115569960 None:intergenic
ACACAATTAATAATGGTCCA+CGG 0.669239 6:-115569203 MsaT034644.1:CDS
TCCGATGAAGCAGACAATGG+CGG 0.674520 6:-115569033 MsaT034644.1:CDS
AAATCCGATGAAGCAGACAA+TGG 0.675612 6:-115569036 MsaT034644.1:CDS
AGTATTTCAAGAATATCACC+CGG 0.675652 6:+115569177 None:intergenic
GAACTATCTTAGGAAGCGAG+CGG 0.698053 6:+115568977 None:intergenic
ATAACCTGCCACAAAATTCG+GGG 0.720063 6:-115570053 MsaT034644.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 115568603 115570784 115568603 ID=MsaG034644
Chr6 mRNA 115568603 115570784 115568603 ID=MsaT034644.1;Parent=MsaG034644
Chr6 exon 115568603 115569292 115568603 ID=MsaT034644.1.exon3;Parent=MsaT034644.1
Chr6 CDS 115568603 115569292 115568603 ID=cds.MsaT034644.1;Parent=MsaT034644.1
Chr6 exon 115569789 115570145 115569789 ID=MsaT034644.1.exon2;Parent=MsaT034644.1
Chr6 CDS 115569789 115570145 115569789 ID=cds.MsaT034644.1;Parent=MsaT034644.1
Chr6 exon 115570725 115570784 115570725 ID=MsaT034644.1.exon1;Parent=MsaT034644.1
Chr6 CDS 115570725 115570784 115570725 ID=cds.MsaT034644.1;Parent=MsaT034644.1
Gene Sequence

>MsaT034644.1

ATGTTGAAGAGAGAGCAATGTGACTACACTAAACATGATTCTAGCTTCTCTCATTGGAAGATTCTTATTGGTCCTTCTGATTGGGAAGACTACTCCAAAGGAAAGGAAGGTTGTCCAAGATATAGAATCCATAACCTGCCACAAAATTCGGGGCCGGGAGTCTATGAGCTCGGAGTAGCTCTGTCGACTAGCGGTTTGGGACGTGAAATTTACAAGCTTGTCACCGACTTGCATCGAGTAGTTGTGGTTTATTTAGGAAAAGCTGATAATGTGAGAACAAGACTCCAATGTTATGGTAGAAATGGAGCTCATTTGGGTAATGGTTGTTCTTCATTTGAATCTTCTCACCAAAAGGGACGTTCATTGTTTCATGAAATCTTTCTTCAAGGTTTCCCAATTGTTTATAGATGGGCTCCTATGCAGACCAAGGGAGATGCCTTGCAAACAGAATCTCAACTACTGAGTACATTTGATTATGCTTGGAACACAATTAATAATGGTCCACGGCGTCCGGGTGATATTCTTGAAATACTCAACAAAATTTCATCAGGCACAAGAACATTTTCAGATGTAGCCAAATCACTTCTACCCTTCACTCAAAAGAAAGTAGGGATACCAATTAAATCAAGCATGTTGCCTATGAAAGATAACAAATCCGATGAAGCAGACAATGGCGGCTACAATTTCCTATCTCGCGTGTTCAAATTCTACCGCTCGCTTCCTAAGATAGTTCAAGATACAACTGATTTTTCCGTTGAGAAGAGTGGTAAAATTTGTGGAGTGATTTTGGATGATGGTTCTATTTGTACAAATACGCCGGTCGAAAAAAGAGTTAGGTGTCATGAACATAAAGGAATGAGAATAAGAACATCCAAGTCAGAATCAAAAAGAGGAAATGCTTGTAGGTACCAAAATATTAAACATGATGTTGAAGATCTTCCACAAACAATGGCTGAGAGTCTTGTTGATGAGAGTGTCACCAAAACTATTATATGTGGAATTATTTTGAAAGATGGATCCACTTGTAGAAGACAACCAGTTAAAGGAAGAAAAAGATGTCATGAACATAAAGGGAAGAGAATTCGTGCATTTGTTCCTATTAATTAG

Protein sequence

>MsaT034644.1

MLKREQCDYTKHDSSFSHWKILIGPSDWEDYSKGKEGCPRYRIHNLPQNSGPGVYELGVALSTSGLGREIYKLVTDLHRVVVVYLGKADNVRTRLQCYGRNGAHLGNGCSSFESSHQKGRSLFHEIFLQGFPIVYRWAPMQTKGDALQTESQLLSTFDYAWNTINNGPRRPGDILEILNKISSGTRTFSDVAKSLLPFTQKKVGIPIKSSMLPMKDNKSDEADNGGYNFLSRVFKFYRSLPKIVQDTTDFSVEKSGKICGVILDDGSICTNTPVEKRVRCHEHKGMRIRTSKSESKRGNACRYQNIKHDVEDLPQTMAESLVDESVTKTIICGIILKDGSTCRRQPVKGRKRCHEHKGKRIRAFVPIN*