AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG041763

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041763 MtrunA17_Chr8g0344621 95.975 472 19 0 1 472 1 472 0.0 936
MsaG041763 MtrunA17_Chr5g0402541 56.633 196 81 3 82 275 67 260 3.51e-68 224
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041763 AT5G66840.2 47.177 248 117 6 89 334 79 314 2.81e-64 217
MsaG041763 AT5G66840.1 47.177 248 117 6 89 334 79 314 2.81e-64 217

Find 116 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTCACCCCTTACTGATTA+AGG 0.202973 8:+11521944 MsaT041763.1:CDS
AAAAGTTCAGAAAATAATTA+AGG 0.207744 8:+11519507 MsaT041763.1:CDS
TGTTGATAGCTTTCTCTGTT+TGG 0.240306 8:-11522803 None:intergenic
GAATCGTCGCATTCTGAATA+TGG 0.258910 8:-11519230 None:intergenic
CACATTCAGGATCTCCAAAA+AGG 0.266194 8:+11522325 MsaT041763.1:intron
CTCCATTGGTGAATCTTGTT+TGG 0.266402 8:-11519171 None:intergenic
GTTGATAGCTTTCTCTGTTT+GGG 0.266738 8:-11522802 None:intergenic
GAAAATCAATGAAGGAAAAT+AGG 0.288860 8:+11522195 MsaT041763.1:CDS
TCAGACCAGCTCAGAAATTC+TGG 0.290575 8:+11522557 MsaT041763.1:CDS
GCCCGTGGAAGGTGCCATTT+TGG 0.299361 8:+11522848 MsaT041763.1:CDS
ATTTGCAGTTATCTCCAAAA+TGG 0.321401 8:-11522862 None:intergenic
AAGAATGGTCTGAGGCTAAC+TGG 0.324632 8:+11520510 MsaT041763.1:CDS
TCAAAGTCTTCAACCGATAT+AGG 0.329078 8:-11521974 None:intergenic
TTCTTCAAGCATGTCGAAAT+CGG 0.336462 8:-11519264 None:intergenic
CTTGTTCTTGATTGAGAGAT+TGG 0.343536 8:-11519303 None:intergenic
AGATTCTCGAACTGTCATAA+TGG 0.357899 8:+11522532 MsaT041763.1:CDS
GCTGGTTTATTTACAATTGC+CGG 0.361821 8:-11522479 None:intergenic
CGCTGTTCAGTTACAGCTGC+TGG 0.367136 8:-11522497 None:intergenic
CACACTTATCCAGCGTATAA+AGG 0.370761 8:+11520542 MsaT041763.1:CDS
AAACCACTTTGTTCCGCGTT+CGG 0.372875 8:+11522751 MsaT041763.1:CDS
CAAGCAACAGCATACATTTA+CGG 0.378848 8:+11521435 MsaT041763.1:CDS
CACTTGTCAAAGGCTTCCTT+TGG 0.379911 8:-11522697 None:intergenic
TCTGAGGCTAACTGGGAATA+AGG 0.384184 8:+11520518 MsaT041763.1:CDS
AAGGGGTGAAGGGGAGGGAG+AGG 0.392273 8:-11521933 None:intergenic
TGAATGTTGGGATGGAAATT+CGG 0.395984 8:-11522444 None:intergenic
CTTTCATTGCTGAGACAAAC+AGG 0.396565 8:+11522663 MsaT041763.1:CDS
TTTCAGCATAGTTGATGATA+AGG 0.399534 8:+11519411 MsaT041763.1:intron
AAATCACTTTGTTCCGCGTT+CGG 0.400132 8:+11522721 MsaT041763.1:CDS
ATCTCTCAGCAGTACTAGTT+GGG 0.403360 8:-11522634 None:intergenic
CTTCACCCCTTACTGATTAA+GGG 0.415771 8:+11521945 MsaT041763.1:CDS
CGGTGGACCACCGCCACTCC+TGG 0.419904 8:-11521359 None:intergenic
TGTGGCAAAAGGATTGTTGC+AGG 0.420400 8:+11521382 MsaT041763.1:CDS
AAAGTTCAGAAAATAATTAA+GGG 0.424535 8:+11519508 MsaT041763.1:CDS
GATTCTCGAACTGTCATAAT+GGG 0.429886 8:+11522533 MsaT041763.1:CDS
TATCTCTCAGCAGTACTAGT+TGG 0.435640 8:-11522635 None:intergenic
TTCAGCATAGTTGATGATAA+GGG 0.447797 8:+11519412 MsaT041763.1:intron
GTTTCGACCCTTAATCAGTA+AGG 0.452446 8:-11521952 None:intergenic
GATCCCTTGCTAGGGCAGAC+AGG 0.454561 8:+11522144 MsaT041763.1:CDS
TCTTCAAGCATGTCGAAATC+GGG 0.462655 8:-11519263 None:intergenic
TCCAAAATGGCACCTTCCAC+GGG 0.469114 8:-11522849 None:intergenic
GTGGTCCACCGTGTGGCAAA+AGG 0.472781 8:+11521371 MsaT041763.1:CDS
CTCCAAAATGGCACCTTCCA+CGG 0.473630 8:-11522850 None:intergenic
TTTAGAAATGGGAGGATGAA+GGG 0.475468 8:+11522084 MsaT041763.1:intron
AGACAGGGAAGCAAGGATAC+AGG 0.477397 8:+11522160 MsaT041763.1:CDS
CTTCCCTGTCTGCCCTAGCA+AGG 0.477748 8:-11522148 None:intergenic
TCAGTAAGGGGTGAAGGGGA+GGG 0.489102 8:-11521938 None:intergenic
TTAAGGGTCGAAACCTATAT+CGG 0.489344 8:+11521961 MsaT041763.1:CDS
TTCAGGATTATAAATGGTGG+AGG 0.493103 8:+11520647 MsaT041763.1:intron
TCGGTTGAAGACTTTGAGAC+AGG 0.497659 8:+11521980 MsaT041763.1:CDS
ACTCTCGGGGATCCCTTGCT+AGG 0.498641 8:+11522135 MsaT041763.1:CDS
TGGATGAATGTGATTGGAAC+TGG 0.500067 8:-11522361 None:intergenic
CATAGTTGATGATAAGGGTC+TGG 0.506481 8:+11519417 MsaT041763.1:CDS
TTGCAATGGATGAATGTGAT+TGG 0.508041 8:-11522367 None:intergenic
ATCAGTAAGGGGTGAAGGGG+AGG 0.518183 8:-11521939 None:intergenic
CGCATAGTGAAAGAAAGTTA+TGG 0.518912 8:+11521406 MsaT041763.1:CDS
AAGTGATTTGCACTTGTCAA+AGG 0.519989 8:-11522707 None:intergenic
AAGATGTATTTGAAGAAGAA+TGG 0.520707 8:+11520495 MsaT041763.1:CDS
ATGCAGGTGATGCATGCACC+GGG 0.522264 8:+11521095 MsaT041763.1:intron
ATGATTTCGTGAAGCTCCAT+TGG 0.522647 8:-11519185 None:intergenic
TAGTTGGGTTGTCTCTGTAA+TGG 0.523341 8:-11522619 None:intergenic
AATGGGAGGATGAAGGGAAA+AGG 0.523988 8:+11522090 MsaT041763.1:CDS
GATTGAAGTGCTGTGGAGCA+AGG 0.525744 8:+11521902 MsaT041763.1:intron
ATAGCGTCCAGGAGTGGCGG+TGG 0.529524 8:+11521352 MsaT041763.1:CDS
CTTGATGCTCCTTTATACGC+TGG 0.532687 8:-11520551 None:intergenic
GGAAGCAAGGATACAGGAAA+AGG 0.534990 8:+11522166 MsaT041763.1:CDS
TTAGGTTCAACATAGCGTCC+AGG 0.535937 8:+11521341 MsaT041763.1:intron
TTCCCTGTCTGCCCTAGCAA+GGG 0.536827 8:-11522147 None:intergenic
AGCTTTGTGTTGAATTGTAA+AGG 0.539427 8:+11520692 MsaT041763.1:CDS
CAATTCAACACAAAGCTATG+AGG 0.540203 8:-11520686 None:intergenic
CCTTAATCAGTAAGGGGTGA+AGG 0.540298 8:-11521944 None:intergenic
TGGATCGGATCCTTCAGATT+CGG 0.541533 8:-11519210 None:intergenic
GGAGATAAGAAAATCAATGA+AGG 0.544402 8:+11522187 MsaT041763.1:CDS
ATCCCTTGCTAGGGCAGACA+GGG 0.545866 8:+11522145 MsaT041763.1:CDS
AGAATGGTCTGAGGCTAACT+GGG 0.547559 8:+11520511 MsaT041763.1:CDS
CAATCTCTCAATCAAGAACA+AGG 0.549028 8:+11519304 MsaT041763.1:CDS
TCAGGATTATAAATGGTGGA+GGG 0.552104 8:+11520648 MsaT041763.1:intron
TGTTGACAAAGCTGAATGTT+GGG 0.553775 8:-11522456 None:intergenic
CTTAATCAGTAAGGGGTGAA+GGG 0.556388 8:-11521943 None:intergenic
AATACAGTTGTTGTTTCTTG+AGG 0.558283 8:-11522404 None:intergenic
AATCACATTCATCCATTGCA+AGG 0.561327 8:+11522369 MsaT041763.1:CDS
TATGCAGGTGATGCATGCAC+CGG 0.565952 8:+11521094 MsaT041763.1:intron
TTTCGACCCTTAATCAGTAA+GGG 0.568427 8:-11521951 None:intergenic
CAGGATTATAAATGGTGGAG+GGG 0.571443 8:+11520649 MsaT041763.1:intron
TCAAGAACAAGGCAAAGAAA+CGG 0.572702 8:+11519315 MsaT041763.1:CDS
CTCTCGGGGATCCCTTGCTA+GGG 0.575799 8:+11522136 MsaT041763.1:CDS
GTGTTGACAAAGCTGAATGT+TGG 0.578190 8:-11522457 None:intergenic
ATTGAAGTGCTGTGGAGCAA+GGG 0.578962 8:+11521903 MsaT041763.1:CDS
CTCAAACAAAACAACATCCC+CGG 0.591505 8:-11521113 None:intergenic
TTAATCAGTAAGGGGTGAAG+GGG 0.595390 8:-11521942 None:intergenic
CGTAAATGTATGCTGTTGCT+TGG 0.595593 8:-11521434 None:intergenic
GAGATTGGAGAAACTACGAT+GGG 0.596765 8:-11519288 None:intergenic
ACTGTTAGAGAAATTGAAAG+TGG 0.598309 8:+11520464 MsaT041763.1:CDS
CTAGGGCAGACAGGGAAGCA+AGG 0.600937 8:+11522153 MsaT041763.1:CDS
ATGACAGTTCGAGAATCTGT+AGG 0.601874 8:-11522527 None:intergenic
TGGTTTGCATTTGCCGAACG+CGG 0.602529 8:-11522734 None:intergenic
TTCAACACAAAGCTATGAGG+CGG 0.603722 8:-11520683 None:intergenic
GAAATCATCACCGAATCTGA+AGG 0.611750 8:+11519200 MsaT041763.1:CDS
AACATAGCGTCCAGGAGTGG+CGG 0.611856 8:+11521349 MsaT041763.1:CDS
TTCAACATAGCGTCCAGGAG+TGG 0.613492 8:+11521346 MsaT041763.1:CDS
TCAACACAAAGCTATGAGGC+GGG 0.614292 8:-11520682 None:intergenic
AAATCATCATCATCAAGAGA+AGG 0.614555 8:-11519481 None:intergenic
TTCGACCCTTAATCAGTAAG+GGG 0.614930 8:-11521950 None:intergenic
GTCGCATTCTGAATATGGAT+CGG 0.616154 8:-11519225 None:intergenic
TGATACAGATTGAAGTGCTG+TGG 0.616244 8:+11521895 MsaT041763.1:intron
TGAGATGAATGCACAAGTGT+TGG 0.618727 8:+11519447 MsaT041763.1:CDS
TTTCCGAACGCGGAACAAAG+TGG 0.622185 8:-11522754 None:intergenic
GACAAAGCTGAATGTTGGGA+TGG 0.627606 8:-11522452 None:intergenic
ACATTCAGCTTTGTCAACAC+CGG 0.627641 8:+11522460 MsaT041763.1:CDS
GATAACTGCAAATTCTTACA+CGG 0.628626 8:+11522872 MsaT041763.1:CDS
CATAACTTTCTTTCACTATG+CGG 0.640723 8:-11521405 None:intergenic
ACAGGAGAGCTTCTTACCAA+AGG 0.644981 8:+11522681 MsaT041763.1:CDS
AGAGATTGGAGAAACTACGA+TGG 0.646170 8:-11519289 None:intergenic
AGTGGCGGTGGTCCACCGTG+TGG 0.672232 8:+11521364 MsaT041763.1:CDS
AGCCAAACAAGATTCACCAA+TGG 0.688618 8:+11519169 MsaT041763.1:CDS
ATTTGAAGAAGAATGGTCTG+AGG 0.702992 8:+11520502 MsaT041763.1:CDS
TGCAGGTGATGCATGCACCG+GGG 0.775103 8:+11521096 MsaT041763.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 11519164 11522898 11519164 ID=MsaG041763
Chr8 mRNA 11519164 11522898 11519164 ID=MsaT041763.1;Parent=MsaG041763
Chr8 exon 11519164 11519336 11519164 ID=MsaT041763.1.exon1;Parent=MsaT041763.1
Chr8 CDS 11519164 11519336 11519164 ID=cds.MsaT041763.1;Parent=MsaT041763.1
Chr8 exon 11519417 11519529 11519417 ID=MsaT041763.1.exon2;Parent=MsaT041763.1
Chr8 CDS 11519417 11519529 11519417 ID=cds.MsaT041763.1;Parent=MsaT041763.1
Chr8 exon 11520460 11520574 11520460 ID=MsaT041763.1.exon3;Parent=MsaT041763.1
Chr8 CDS 11520460 11520574 11520460 ID=cds.MsaT041763.1;Parent=MsaT041763.1
Chr8 exon 11520652 11520713 11520652 ID=MsaT041763.1.exon4;Parent=MsaT041763.1
Chr8 CDS 11520652 11520713 11520652 ID=cds.MsaT041763.1;Parent=MsaT041763.1
Chr8 exon 11521101 11521152 11521101 ID=MsaT041763.1.exon5;Parent=MsaT041763.1
Chr8 CDS 11521101 11521152 11521101 ID=cds.MsaT041763.1;Parent=MsaT041763.1
Chr8 exon 11521345 11521456 11521345 ID=MsaT041763.1.exon6;Parent=MsaT041763.1
Chr8 CDS 11521345 11521456 11521345 ID=cds.MsaT041763.1;Parent=MsaT041763.1
Chr8 exon 11521903 11522001 11521903 ID=MsaT041763.1.exon7;Parent=MsaT041763.1
Chr8 CDS 11521903 11522001 11521903 ID=cds.MsaT041763.1;Parent=MsaT041763.1
Chr8 exon 11522089 11522216 11522089 ID=MsaT041763.1.exon8;Parent=MsaT041763.1
Chr8 CDS 11522089 11522216 11522089 ID=cds.MsaT041763.1;Parent=MsaT041763.1
Chr8 exon 11522334 11522898 11522334 ID=MsaT041763.1.exon9;Parent=MsaT041763.1
Chr8 CDS 11522334 11522898 11522334 ID=cds.MsaT041763.1;Parent=MsaT041763.1
Gene Sequence

>MsaT041763.1

ATGGCAGCCAAACAAGATTCACCAATGGAGCTTCACGAAATCATCACCGAATCTGAAGGATCCGATCCATATTCAGAATGCGACGATTCAGAAGAAGATCCCGATTTCGACATGCTTGAAGAAACCCATCGTAGTTTCTCCAATCTCTCAATCAAGAACAAGGCAAAGAAACGCATAGTTGATGATAAGGGTCTGGCTAGTATTGAGATGAATGCACAAGTGTTGGTGATGAATGCACCTTCTCTTGATGATGATGATTTTGAAAAAGTTCAGAAAATAATTAAGGCTGGACTGTTAGAGAAATTGAAAGTGGATGAATGCAAGATGTATTTGAAGAAGAATGGTCTGAGGCTAACTGGGAATAAGGACACACTTATCCAGCGTATAAAGGAGCATCAAGAGATTATAAATGGTGGAGGGGAGAATAAGTACCCGCCTCATAGCTTTGTGTTGAATTGTAAAGGTGATGCATGCACCGGGGATGTTGTTTTGTTTGAGCAAAATGTGTATGAAATGTTCAACATAGCGTCCAGGAGTGGCGGTGGTCCACCGTGTGGCAAAAGGATTGTTGCAGGCCGCATAGTGAAAGAAAGTTATGGTGCTGCCAAGCAACAGCATACATTTACGATTGAAGTGCTGTGGAGCAAGGGAGAAAAGCCTCTCCCTCCCCTTCACCCCTTACTGATTAAGGGTCGAAACCTATATCGGTTGAAGACTTTGAGACAGAAATGGGAGGATGAAGGGAAAAGGCAAAAACTGTTAATGGAAAAACACTCTCGGGGATCCCTTGCTAGGGCAGACAGGGAAGCAAGGATACAGGAAAAGGAGATAAGAAAATCAATGAAGGAAAATAGGATCTCCAAAAAGGATTCAGCAAAGAACCAGTTCCAATCACATTCATCCATTGCAAGGTCACAAAATCAACCTCAAGAAACAACAACTGTATTCATTAATCCAAGAAAAACCGAATTTCCATCCCAACATTCAGCTTTGTCAACACCGGCAATTGTAAATAAACCAGCAGCTGTAACTGAACAGCGCGTTCAGCCTACAGATTCTCGAACTGTCATAATGGGATCAGACCAGCTCAGAAATTCTGGAAAATCATCTTTTATCGCAAACAACTATTATGCTGACTACCATTACAGAGACAACCCAACTAGTACTGCTGAGAGATACAATGCTTTCATTGCTGAGACAAACAGGAGAGCTTCTTACCAAAGGAAGCCTTTGACAAGTGCAAATCACTTTGTTCCGCGTTCGGCAAATGCAAACCACTTTGTTCCGCGTTCGGAAAATGCAAATCACATGCATACATTGATCCCAAACAGAGAAAGCTATCAACAAAAACAGTTTTGTAGACATTTTGCCCGTGGAAGGTGCCATTTTGGAGATAACTGCAAATTCTTACACGGTTGA
Protein sequence

>MsaT041763.1

MAAKQDSPMELHEIITESEGSDPYSECDDSEEDPDFDMLEETHRSFSNLSIKNKAKKRIVDDKGLASIEMNAQVLVMNAPSLDDDDFEKVQKIIKAGLLEKLKVDECKMYLKKNGLRLTGNKDTLIQRIKEHQEIINGGGENKYPPHSFVLNCKGDACTGDVVLFEQNVYEMFNIASRSGGGPPCGKRIVAGRIVKESYGAAKQQHTFTIEVLWSKGEKPLPPLHPLLIKGRNLYRLKTLRQKWEDEGKRQKLLMEKHSRGSLARADREARIQEKEIRKSMKENRISKKDSAKNQFQSHSSIARSQNQPQETTTVFINPRKTEFPSQHSALSTPAIVNKPAAVTEQRVQPTDSRTVIMGSDQLRNSGKSSFIANNYYADYHYRDNPTSTAERYNAFIAETNRRASYQRKPLTSANHFVPRSANANHFVPRSENANHMHTLIPNRESYQQKQFCRHFARGRCHFGDNCKFLHG*