AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG035016


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035016 MtrunA17_Chr7g0214501 84.091 352 14 1 86 437 1 310 0.0 552
MsaG035016 MtrunA17_Chr1g0213311 60.567 388 136 6 1 377 1 382 2.50e-164 469
MsaG035016 MtrunA17_Chr3g0079841 39.404 302 120 6 22 323 26 264 4.54e-57 189
MsaG035016 MtrunA17_Chr7g0214491 97.647 85 2 0 1 85 1 85 5.20e-57 183
MsaG035016 MtrunA17_Chr3g0143581 51.852 135 61 3 25 156 20 153 3.44e-40 142
MsaG035016 MtrunA17_Chr3g0143571 46.207 145 72 2 190 329 23 166 4.74e-36 130
MsaG035016 MtrunA17_Chr5g0435401 23.711 291 159 7 67 353 70 301 4.14e-13 70.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035016 AT1G04880.1 55.080 374 139 6 1 356 1 363 2.19e-120 358
MsaG035016 AT1G76110.1 42.581 310 161 2 25 327 27 326 2.55e-81 254
MsaG035016 AT3G13350.1 45.513 312 138 8 30 336 34 318 5.30e-79 248
MsaG035016 AT1G55650.1 40.199 301 139 6 32 331 30 290 4.08e-65 213

Find 92 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTCTGCAGTGTCTTCTTC+TGG 0.231989 7:+5945537 MsaT035016.1:intron
GGAGAAGCTTCATGCTTCTA+TGG 0.249345 7:+5943165 MsaT035016.1:CDS
GGAAGAAGTCAGAAATAAAA+AGG 0.265856 7:+5945733 MsaT035016.1:CDS
TTATCAAGAAAAGGCTATTA+AGG 0.267196 7:+5946515 MsaT035016.1:CDS
TGTTTCAGGGTTCCCATTAT+TGG 0.277531 7:+5943380 MsaT035016.1:intron
CGGTGGACCCCTGCATCTTC+TGG 0.281007 7:+5944574 MsaT035016.1:CDS
TCTTCTGGATCTTCACTTGT+TGG 0.289352 7:+5945552 MsaT035016.1:CDS
ATAGGAGCTACCACTTTCAT+AGG 0.334690 7:-5943067 None:intergenic
TCACTTGTTGGAGTTATTGA+TGG 0.342127 7:+5945564 MsaT035016.1:CDS
TAACCACTTCTGTTAGGTTT+CGG 0.349489 7:-5945771 None:intergenic
TAATATCCTTGTCCATGGTT+TGG 0.351606 7:-5945839 None:intergenic
CAATATTTCATCTGCTGCAT+TGG 0.356586 7:+5945686 MsaT035016.1:CDS
TCCTCCTCCGACGGCGGCGT+TGG 0.371177 7:-5945713 None:intergenic
ATCAACATGGATGCTTCTTC+CGG 0.386689 7:+5946738 MsaT035016.1:CDS
GCCACTACAACAATGGTTTC+CGG 0.389715 7:+5946614 MsaT035016.1:CDS
ACTCCCGAGGAGAGTAGTTC+TGG 0.398649 7:+5946690 MsaT035016.1:CDS
AGATGCAGGGGTCCACCGTT+TGG 0.409841 7:-5944569 None:intergenic
AAAATTGTCTACACTAAAGT+AGG 0.410247 7:-5946911 None:intergenic
AAATTGTAACCACTTCTGTT+AGG 0.413038 7:-5945777 None:intergenic
GTAGAATGATTGGCGAACTT+TGG 0.413562 7:+5945862 MsaT035016.1:CDS
GAAGCATTGGTTGCTGTTGA+TGG 0.418040 7:-5944481 None:intergenic
AAAGTAGGGATAACATGTTT+TGG 0.420130 7:-5946896 None:intergenic
AGAAAGGTACCAAGCAGAAA+TGG 0.423266 7:+5946542 MsaT035016.1:CDS
TTGTAGTGGCCCCACGTTGT+CGG 0.426541 7:-5946601 None:intergenic
AATATTTCATCTGCTGCATT+GGG 0.436397 7:+5945687 MsaT035016.1:CDS
AAGTCGACTAGATGTGTTCC+TGG 0.437837 7:-5944753 None:intergenic
CTGTTAGGTTTCGGATGTGC+AGG 0.443824 7:-5945762 None:intergenic
CTAGTCGACTTTCAGAAGTC+AGG 0.453397 7:+5944765 MsaT035016.1:CDS
CATTAAGGTTTATCAAGAAA+AGG 0.456846 7:+5946506 MsaT035016.1:intron
ATTGATGGAAAGTTTGAAAG+TGG 0.459678 7:+5945579 MsaT035016.1:CDS
AAGGATATTAGTAGAATGAT+TGG 0.462358 7:+5945852 MsaT035016.1:CDS
TCCGGAAGGAGATTCAGCTT+TGG 0.463701 7:+5946632 MsaT035016.1:CDS
AGAATCCACTCTTGCTCCAC+CGG 0.466317 7:-5946757 None:intergenic
GGAAGGAGATTCAGCTTTGG+TGG 0.466851 7:+5946635 MsaT035016.1:CDS
CAATGTAAGCATGAAGAGCT+TGG 0.468989 7:-5943143 None:intergenic
TCCAACGCCGCCGTCGGAGG+AGG 0.470219 7:+5945712 MsaT035016.1:CDS
AGCTTATGAAAGAGAGAAGA+TGG 0.479121 7:+5944431 MsaT035016.1:intron
ACCAAAGCTGAATCTCCTTC+CGG 0.486239 7:-5946633 None:intergenic
TATCTAGTTTCAGTTTCAGT+AGG 0.493509 7:+5945603 MsaT035016.1:CDS
TCTGAGCACAAAGGAAGCAT+TGG 0.506402 7:-5944494 None:intergenic
AATGTAAGCATGAAGAGCTT+GGG 0.506705 7:-5943142 None:intergenic
CAAGCTCTTCATGCTTACAT+TGG 0.506994 7:+5943144 MsaT035016.1:CDS
ACGTGGGGCCACTACAACAA+TGG 0.507571 7:+5946607 MsaT035016.1:CDS
TTCAGGGTTCCCATTATTGG+AGG 0.517053 7:+5943383 MsaT035016.1:intron
GAGAAGCTTCATGCTTCTAT+GGG 0.518689 7:+5943166 MsaT035016.1:CDS
TGGGCGTCCAACGCCGCCGT+CGG 0.523765 7:+5945706 MsaT035016.1:CDS
TTCATTGAAGTGACTTCTCG+TGG 0.526953 7:+5943431 MsaT035016.1:CDS
ATGCACAAACCAGAAGATGC+AGG 0.528390 7:-5944583 None:intergenic
CAATGATTTCCCTATGAAAG+TGG 0.531885 7:+5943057 MsaT035016.1:CDS
TTCACCAGAACTACTCTCCT+CGG 0.534121 7:-5946694 None:intergenic
TCCGGAAACCATTGTTGTAG+TGG 0.534545 7:-5946615 None:intergenic
GATAATCCTCCATTTCTGCT+TGG 0.539679 7:-5946551 None:intergenic
ACTAGATGTGTTCCTGGAGA+AGG 0.543700 7:-5944747 None:intergenic
TCTACTAATATCCTTGTCCA+TGG 0.543804 7:-5945844 None:intergenic
TGAAGTTCTTAGCCATTGTG+TGG 0.547886 7:+5946824 MsaT035016.1:CDS
TGCACAAACCAGAAGATGCA+GGG 0.551653 7:-5944582 None:intergenic
TCACCAGAACTACTCTCCTC+GGG 0.553627 7:-5946693 None:intergenic
TAGTCGACTTTCAGAAGTCA+GGG 0.559876 7:+5944766 MsaT035016.1:CDS
TTCAGACAAGGCAACTAAAG+AGG 0.562146 7:+5946794 MsaT035016.1:CDS
GCGTCCAACGCCGCCGTCGG+AGG 0.562184 7:+5945709 MsaT035016.1:CDS
TTGAAGTGACTTCTCGTGGA+GGG 0.562395 7:+5943435 MsaT035016.1:CDS
TCAGGATATGAATGAGACAT+AGG 0.570116 7:-5943085 None:intergenic
AGGCTATTAAGGATAAAGAA+AGG 0.573816 7:+5946526 MsaT035016.1:CDS
TTCTTCCGGTGGAGCAAGAG+TGG 0.579438 7:+5946752 MsaT035016.1:CDS
GAAGTTCTTAGCCATTGTGT+GGG 0.584046 7:+5946825 MsaT035016.1:CDS
CTGACTTCTTCCTCCTCCGA+CGG 0.584477 7:-5945722 None:intergenic
TATTGAAGCTGGAACAGACA+TGG 0.585157 7:-5944709 None:intergenic
AACATGGATGCTTCTTCCGG+TGG 0.585693 7:+5946741 MsaT035016.1:CDS
TCAGACAAGGCAACTAAAGA+GGG 0.586671 7:+5946795 MsaT035016.1:CDS
TGTGTGGGAGAAGTGAATGC+TGG 0.588451 7:+5946840 MsaT035016.1:CDS
AAATTGTCTACACTAAAGTA+GGG 0.600990 7:-5946910 None:intergenic
TGCAAAATATGATGATGTTG+TGG 0.605066 7:+5943114 MsaT035016.1:CDS
ACTTCTTCCTCCTCCGACGG+CGG 0.605098 7:-5945719 None:intergenic
CATCCGAAACCTAACAGAAG+TGG 0.610656 7:+5945768 MsaT035016.1:CDS
AAAGCTACTAAACCAAACCA+TGG 0.615278 7:+5945827 MsaT035016.1:CDS
AATGCTTCTGAATTGCCTCA+AGG 0.618648 7:+5944792 MsaT035016.1:CDS
TAGGAGCTACCACTTTCATA+GGG 0.623246 7:-5943066 None:intergenic
AAGGTACCAAGCAGAAATGG+AGG 0.630994 7:+5946545 MsaT035016.1:CDS
GAGCATTGTAACCGACAACG+TGG 0.654243 7:+5946590 MsaT035016.1:CDS
GCATTGTAACCGACAACGTG+GGG 0.657282 7:+5946592 MsaT035016.1:CDS
TTCTCGTGGAGGGATTGAGA+AGG 0.661472 7:+5943445 MsaT035016.1:CDS
CATTCACTTCTCCCACACAA+TGG 0.666134 7:-5946836 None:intergenic
GCACAAACCAGAAGATGCAG+GGG 0.670000 7:-5944581 None:intergenic
ACTAAACCAAACCATGGACA+AGG 0.670033 7:+5945833 MsaT035016.1:CDS
GTAGGTTCAGAGACACTCAA+AGG 0.670192 7:+5945621 MsaT035016.1:CDS
CGATTCTTGTCAGACTCCCG+AGG 0.670735 7:+5946677 MsaT035016.1:CDS
CTACAACAATGGTTTCCGGA+AGG 0.672481 7:+5946618 MsaT035016.1:CDS
AGCATTGTAACCGACAACGT+GGG 0.675264 7:+5946591 MsaT035016.1:CDS
AGTCGACTTTCAGAAGTCAG+GGG 0.676218 7:+5944767 MsaT035016.1:CDS
ATTGAAGTGACTTCTCGTGG+AGG 0.683803 7:+5943434 MsaT035016.1:CDS
GTGGGAGAAGTGAATGCTGG+AGG 0.708907 7:+5946843 MsaT035016.1:CDS
TGTTGCAGATGATATCAACA+TGG 0.720650 7:+5946725 MsaT035016.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 5943028 5946920 5943028 ID=MsaG035016
Chr7 mRNA 5943028 5946920 5943028 ID=MsaT035016.1;Parent=MsaG035016
Chr7 exon 5943028 5943200 5943028 ID=MsaT035016.1.exon1;Parent=MsaT035016.1
Chr7 CDS 5943028 5943200 5943028 ID=cds.MsaT035016.1;Parent=MsaT035016.1
Chr7 exon 5943388 5943466 5943388 ID=MsaT035016.1.exon2;Parent=MsaT035016.1
Chr7 CDS 5943388 5943466 5943388 ID=cds.MsaT035016.1;Parent=MsaT035016.1
Chr7 exon 5944433 5944595 5944433 ID=MsaT035016.1.exon3;Parent=MsaT035016.1
Chr7 CDS 5944433 5944595 5944433 ID=cds.MsaT035016.1;Parent=MsaT035016.1
Chr7 exon 5944688 5944813 5944688 ID=MsaT035016.1.exon4;Parent=MsaT035016.1
Chr7 CDS 5944688 5944813 5944688 ID=cds.MsaT035016.1;Parent=MsaT035016.1
Chr7 exon 5945547 5945911 5945547 ID=MsaT035016.1.exon5;Parent=MsaT035016.1
Chr7 CDS 5945547 5945911 5945547 ID=cds.MsaT035016.1;Parent=MsaT035016.1
Chr7 exon 5946513 5946920 5946513 ID=MsaT035016.1.exon6;Parent=MsaT035016.1
Chr7 CDS 5946513 5946920 5946513 ID=cds.MsaT035016.1;Parent=MsaT035016.1
Gene Sequence

>MsaT035016.1

ATGGCATCAACATCATGTTTTTTCAACAACAATGATTTCCCTATGAAAGTGGTAGCTCCTATGTCTCATTCATATCCTGAACCTCTTGCAAAATATGATGATGTTGTGGCAAATCCCAAGCTCTTCATGCTTACATTGGAGAAGCTTCATGCTTCTATGGGTACTAAGTTCATGGTTCCCATTATTGGAGGAAAAGAACTAGATTTGTGTCGACTCTTCATTGAAGTGACTTCTCGTGGAGGGATTGAGAAGCTTATGAAAGAGAGAAGATGGAAAGAAGTAACTGCAGCTTTCAGTTTTCCATCAACAGCAACCAATGCTTCCTTTGTGCTCAGAAAATACTATTCTTCATTGCTTTATCACTATGAGCAAATCTACTATTTTAGATCCAAACGGTGGACCCCTGCATCTTCTGATGCTTTGCAGAATCAATCAACCATGTCTGTTCCAGCTTCAATAACGCAATTTTTGCAGCCTTCTCCAGGAACACATCTAGTCGACTTTCAGAAGTCAGGGGTTAATGCTTCTGAATTGCCTCAAGTGTCTTCTTCTGGATCTTCACTTGTTGGAGTTATTGATGGAAAGTTTGAAAGTGGATATCTAGTTTCAGTTTCAGTAGGTTCAGAGACACTCAAAGGTGTACTATATGAGTCTCCACAAAGCATTAAAATTAATAATAACAATATTTCATCTGCTGCATTGGGCGTCCAACGCCGCCGTCGGAGGAGGAAGAAGTCAGAAATAAAAAGGAGAGATCCTGCACATCCGAAACCTAACAGAAGTGGTTACAATTTCTTCTTTGCTGAACAGCATGCAAGACTAAAGCTACTAAACCAAACCATGGACAAGGATATTAGTAGAATGATTGGCGAACTTTGGAACAACTTAAAAGAGTCTGAGAAAACAGTTTATCAAGAAAAGGCTATTAAGGATAAAGAAAGGTACCAAGCAGAAATGGAGGATTATCGCGATAAAATGAAGACGAGCATTGTAACCGACAACGTGGGGCCACTACAACAATGGTTTCCGGAAGGAGATTCAGCTTTGGTGGACATTGACATAAAAATGCACGATTCTTGTCAGACTCCCGAGGAGAGTAGTTCTGGTGAAAGTGACTATGTTGCAGATGATATCAACATGGATGCTTCTTCCGGTGGAGCAAGAGTGGATTCTGAAGCTTTTGTTGATTCAGACAAGGCAACTAAAGAGGGAGTTATTGAAGTTCTTAGCCATTGTGTGGGAGAAGTGAATGCTGGAGGAATTCAACAGACACAAAAGATGAATGAGAGCCAAAACATGTTATCCCTACTTTAG

Protein sequence

>MsaT035016.1

MASTSCFFNNNDFPMKVVAPMSHSYPEPLAKYDDVVANPKLFMLTLEKLHASMGTKFMVPIIGGKELDLCRLFIEVTSRGGIEKLMKERRWKEVTAAFSFPSTATNASFVLRKYYSSLLYHYEQIYYFRSKRWTPASSDALQNQSTMSVPASITQFLQPSPGTHLVDFQKSGVNASELPQVSSSGSSLVGVIDGKFESGYLVSVSVGSETLKGVLYESPQSIKINNNNISSAALGVQRRRRRRKKSEIKRRDPAHPKPNRSGYNFFFAEQHARLKLLNQTMDKDISRMIGELWNNLKESEKTVYQEKAIKDKERYQAEMEDYRDKMKTSIVTDNVGPLQQWFPEGDSALVDIDIKMHDSCQTPEESSSGESDYVADDINMDASSGGARVDSEAFVDSDKATKEGVIEVLSHCVGEVNAGGIQQTQKMNESQNMLSLL*