AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG043445

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043445 MtrunA17_Chr8g0363991 93.065 447 31 0 1 447 1 447 0.0 865
MsaG043445 MtrunA17_Chr7g0260581 75.309 405 94 5 44 447 143 542 0.0 641
MsaG043445 MtrunA17_Chr8g0369041 37.838 111 62 3 337 440 88 198 1.30e-12 68.9
MsaG043445 MtrunA17_Chr3g0143981 33.333 117 64 2 327 430 99 214 3.62e-12 68.6
MsaG043445 MtrunA17_Chr2g0285151 40.860 93 52 2 345 435 85 176 4.71e-12 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043445 AT3G54610.1 66.837 392 124 4 58 447 181 568 0.0 567
MsaG043445 AT2G34900.1 37.736 106 58 4 337 435 103 207 8.47e-13 70.1
MsaG043445 AT2G34900.2 38.710 93 54 2 345 435 6 97 9.07e-13 68.9
MsaG043445 AT1G76380.3 40.964 83 48 1 359 441 165 246 7.79e-11 64.7
MsaG043445 AT1G76380.2 40.964 83 48 1 359 441 166 247 9.06e-11 64.3
MsaG043445 AT1G76380.1 40.964 83 48 1 359 441 165 246 9.46e-11 64.3

Find 103 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATAAGTCTATAATGGTTATA+AGG 0.249320 8:+45832907 MsaT043445.1:CDS
TGTAGCACATTTGTAATATA+TGG 0.254796 8:-45833747 None:intergenic
TTATAACCATTATAGACTTA+TGG 0.281569 8:-45832905 None:intergenic
GGAAGAGAATCTCAAGAAAA+AGG 0.308506 8:+45832734 MsaT043445.1:CDS
AGTGATGATCAACAAGTAAA+AGG 0.317455 8:+45833011 MsaT043445.1:CDS
CGCGAATGACCGTACATATC+AGG 0.322015 8:-45833434 None:intergenic
CTCATTGTCTTTAGATCCAT+TGG 0.327319 8:-45833623 None:intergenic
CGAAGGCCGAAGGGCCAGTC+TGG 0.327450 8:-45832500 None:intergenic
GTTGATGCACAGAGTGTTCC+TGG 0.327817 8:+45833578 MsaT043445.1:CDS
TGCATTCTCAAACATTCTTC+TGG 0.343144 8:-45833702 None:intergenic
ATGTACTCCTTGGGCATATT+GGG 0.349906 8:-45832858 None:intergenic
AACAGTTCAGCCGCTACTTC+CGG 0.350067 8:+45832624 MsaT043445.1:CDS
AATGTACTCCTTGGGCATAT+TGG 0.350870 8:-45832859 None:intergenic
AAATCAGTATAAGGAAGCTT+TGG 0.358698 8:-45833239 None:intergenic
TCCTTGAATGGCCAAGCATC+AGG 0.363142 8:-45833551 None:intergenic
GGGCATATTGGGAAGTTGTT+TGG 0.371176 8:-45832847 None:intergenic
ATGTCATCAACAATTCTATT+AGG 0.371443 8:-45833383 None:intergenic
GTACATTGTCCGACTTGTTA+TGG 0.381254 8:+45832875 MsaT043445.1:CDS
GCAAACCTTTGATTTGCATA+TGG 0.383325 8:-45832966 None:intergenic
CGGTTCTGTCCCCGACTTTG+TGG 0.384446 8:+45832644 MsaT043445.1:CDS
CCCTGATGCTTGGCCATTCA+AGG 0.388688 8:+45833550 MsaT043445.1:CDS
ATAGTTGATAAATCAGTATA+AGG 0.397900 8:-45833248 None:intergenic
TCTCTCCAAGTGAATCTCTT+TGG 0.400262 8:-45833153 None:intergenic
TAAGTCTATAATGGTTATAA+GGG 0.403247 8:+45832908 MsaT043445.1:CDS
TGTCCCCGACTTTGTGGTTA+AGG 0.412892 8:+45832650 MsaT043445.1:CDS
TGTTGATGACATCCCTGGTT+TGG 0.413040 8:+45833394 MsaT043445.1:CDS
TAGGAACCATAAGTCTATAA+TGG 0.415215 8:+45832899 MsaT043445.1:CDS
GATCAACAAGTAAAAGGTTA+TGG 0.418177 8:+45833017 MsaT043445.1:CDS
TCTTCCTTAACCACAAAGTC+GGG 0.423046 8:-45832654 None:intergenic
TTTCTTGAGATTCTCTTCCC+TGG 0.429530 8:-45832730 None:intergenic
GTTTATGCGTTCAATTCTAA+AGG 0.430657 8:+45833514 MsaT043445.1:CDS
TAAGAGGTGGTTACAGTGCC+AGG 0.431578 8:+45832712 MsaT043445.1:CDS
CAGATATGTGTTTGCGCTTG+TGG 0.433930 8:-45832536 None:intergenic
TGTCACAATATTGTTTATGC+TGG 0.434218 8:+45833323 MsaT043445.1:CDS
AGGGAGCATAATCGCGTTGT+TGG 0.436622 8:+45832927 MsaT043445.1:CDS
CACAAAGTCGGGGACAGAAC+CGG 0.441013 8:-45832643 None:intergenic
GGCTGAACTGTTCACAGAAC+CGG 0.441410 8:-45832613 None:intergenic
TATGCTGACAACAATGCTAT+TGG 0.442748 8:+45833107 MsaT043445.1:CDS
TCGATGGGAAGGTTATATAA+AGG 0.445441 8:+45833178 MsaT043445.1:CDS
AATCAGTATAAGGAAGCTTT+GGG 0.448274 8:-45833238 None:intergenic
GGAACACTCTGTGCATCAAC+AGG 0.449599 8:-45833575 None:intergenic
CAGTATGCACGTGATGTAGA+TGG 0.451140 8:+45833065 MsaT043445.1:CDS
TCTTCGATGCACAACTTCAC+CGG 0.454616 8:+45832594 MsaT043445.1:CDS
GGTTATATAAAGGATTATGA+TGG 0.483037 8:+45833188 MsaT043445.1:CDS
GTGACAACGCTCCTCCAGTC+AGG 0.484636 8:+45833797 MsaT043445.1:CDS
TTCAGTGAATATATTTGTTG+CGG 0.487964 8:-45832679 None:intergenic
GCATCAACAGGCTCCTTGAA+TGG 0.492470 8:-45833563 None:intergenic
ATGCTATCAACGAAACCATA+TGG 0.498728 8:-45832809 None:intergenic
CATCCAGCCTCTTCCAAACC+AGG 0.507643 8:-45833407 None:intergenic
TGACGGTGTTGATGACCATA+TGG 0.509355 8:+45832794 MsaT043445.1:CDS
GAGCATAATCGCGTTGTTGG+AGG 0.514705 8:+45832930 MsaT043445.1:CDS
AAGTCGGACAATGTACTCCT+TGG 0.515077 8:-45832868 None:intergenic
CTGGTTTGGAAGAGGCTGGA+TGG 0.515406 8:+45833408 MsaT043445.1:CDS
AAAGACAATGAGTGAGAGGC+TGG 0.516667 8:+45833634 MsaT043445.1:CDS
AGAATTGTTGATGACATCCC+TGG 0.521290 8:+45833389 MsaT043445.1:CDS
TATGATCCGTCGGCAAAGAC+AGG 0.524541 8:+45833268 MsaT043445.1:CDS
CTGATATGTACGGTCATTCG+CGG 0.528433 8:+45833435 MsaT043445.1:CDS
GTTATATAAAGGATTATGAT+GGG 0.531624 8:+45833189 MsaT043445.1:CDS
GAAGAAGTGGCGAAGGCCGA+AGG 0.533161 8:-45832510 None:intergenic
TTTCAGAAGAGATCAGAAGC+TGG 0.533279 8:+45833353 MsaT043445.1:CDS
GGAATCCCAGACTGGCCCTT+CGG 0.533805 8:+45832494 MsaT043445.1:CDS
AGTCGGACAATGTACTCCTT+GGG 0.536912 8:-45832867 None:intergenic
TGCATGATCACCCTGATGCT+TGG 0.543551 8:+45833540 MsaT043445.1:CDS
ATCCCTGGTTTGGAAGAGGC+TGG 0.545010 8:+45833404 MsaT043445.1:CDS
GAGTCGCGAGAAGGGTGGAA+TGG 0.550392 8:-45832573 None:intergenic
TTCTTCCTTAACCACAAAGT+CGG 0.550744 8:-45832655 None:intergenic
TGACATCCCTGGTTTGGAAG+AGG 0.563057 8:+45833400 MsaT043445.1:CDS
GAAGGCCGAAGGGCCAGTCT+GGG 0.566510 8:-45832499 None:intergenic
TATGTGTTTGCGCTTGTGGA+TGG 0.568768 8:-45832532 None:intergenic
GCATCGAAGAGTCGCGAGAA+GGG 0.569693 8:-45832581 None:intergenic
CCTAAGATGGAATCCCAGAC+TGG 0.573043 8:+45832486 None:intergenic
TATATAAAGGATTATGATGG+GGG 0.574524 8:+45833191 MsaT043445.1:CDS
ATCGTCCATATGCAAATCAA+AGG 0.576246 8:+45832961 MsaT043445.1:CDS
TCACTTGGAGAGAGATCGAT+GGG 0.581124 8:+45833163 MsaT043445.1:CDS
TTTGAATGTGTGTGCAATGA+CGG 0.586373 8:+45832777 MsaT043445.1:CDS
AAGAGGTGGTTACAGTGCCA+GGG 0.587476 8:+45832713 MsaT043445.1:CDS
ATTGGCTATTTCATCAAACA+AGG 0.588299 8:+45833125 MsaT043445.1:CDS
ATTTACCAAAGAGATTCACT+TGG 0.590454 8:+45833148 MsaT043445.1:CDS
TTCACTTGGAGAGAGATCGA+TGG 0.592040 8:+45833162 MsaT043445.1:CDS
ATAGTGCCTGTCTTTGCCGA+CGG 0.594963 8:-45833274 None:intergenic
TGCATCGAAGAGTCGCGAGA+AGG 0.596294 8:-45832582 None:intergenic
GGATGGACTCCTGATATGTA+CGG 0.597833 8:+45833425 MsaT043445.1:CDS
AATGAGTGAGAGGCTGGAGT+CGG 0.604610 8:+45833640 MsaT043445.1:CDS
TTTATGATTTCATAATAACC+AGG 0.609225 8:-45833596 None:intergenic
TCGAAGAGTCGCGAGAAGGG+TGG 0.613498 8:-45832578 None:intergenic
GTGGATGGAAGAAGTGGCGA+AGG 0.613879 8:-45832517 None:intergenic
AAGAAGTGGCGAAGGCCGAA+GGG 0.614868 8:-45832509 None:intergenic
ATCTAAAGACAATGAGTGAG+AGG 0.615052 8:+45833630 MsaT043445.1:CDS
GGGGACAGAACCGGAAGTAG+CGG 0.615590 8:-45832634 None:intergenic
TTGTCCGACTTGTTATGGAT+AGG 0.616928 8:+45832880 MsaT043445.1:CDS
TTGGAGAGAGATCGATGGGA+AGG 0.618097 8:+45833167 MsaT043445.1:CDS
GCGCTTGTGGATGGAAGAAG+TGG 0.619030 8:-45832523 None:intergenic
CCTTGAATGGCCAAGCATCA+GGG 0.619229 8:-45833550 None:intergenic
TCGCGAGAAGGGTGGAATGG+AGG 0.623596 8:-45832570 None:intergenic
CACATTTGAGATGTTTCTCG+CGG 0.625722 8:+45833676 MsaT043445.1:CDS
CAGAAGAGATCAGAAGCTGG+AGG 0.631156 8:+45833356 MsaT043445.1:CDS
TTATATAAAGGATTATGATG+GGG 0.635609 8:+45833190 MsaT043445.1:CDS
ATTTATCAACTATGATCCGT+CGG 0.639900 8:+45833258 MsaT043445.1:CDS
ATCCAGCCTCTTCCAAACCA+GGG 0.651977 8:-45833406 None:intergenic
ACAACTTCCCAATATGCCCA+AGG 0.659674 8:+45832851 MsaT043445.1:CDS
CTTCCTTAACCACAAAGTCG+GGG 0.661782 8:-45832653 None:intergenic
GGTTCCTATCCATAACAAGT+CGG 0.663748 8:-45832884 None:intergenic
CAAGCGCAAACACATATCTG+AGG 0.695714 8:+45832539 MsaT043445.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 45832492 45833835 45832492 ID=MsaG043445
Chr8 mRNA 45832492 45833835 45832492 ID=MsaT043445.1;Parent=MsaG043445
Chr8 exon 45832492 45833835 45832492 ID=MsaT043445.1.exon1;Parent=MsaT043445.1
Chr8 CDS 45832492 45833835 45832492 ID=cds.MsaT043445.1;Parent=MsaT043445.1
Gene Sequence

>MsaT043445.1

ATGGAATCCCAGACTGGCCCTTCGGCCTTCGCCACTTCTTCCATCCACAAGCGCAAACACATATCTGAGGATCACGCACCTCCATTCCACCCTTCTCGCGACTCTTCGATGCACAACTTCACCGGTTCTGTGAACAGTTCAGCCGCTACTTCCGGTTCTGTCCCCGACTTTGTGGTTAAGGAAGAAGCCGCAACAAATATATTCACTGAAAAATTGCAGATAAGAGGTGGTTACAGTGCCAGGGAAGAGAATCTCAAGAAAAAGGAAGAATCTGGATTGCTCAAATTTGAATGTGTGTGCAATGACGGTGTTGATGACCATATGGTTTCGTTGATAGCATTGAAGAATATATTTGCCAAACAACTTCCCAATATGCCCAAGGAGTACATTGTCCGACTTGTTATGGATAGGAACCATAAGTCTATAATGGTTATAAGGGAGCATAATCGCGTTGTTGGAGGCGTTACATATCGTCCATATGCAAATCAAAGGTTTGCTGAGATAGCTTTTTGTGCAATTAGTGATGATCAACAAGTAAAAGGTTATGGTACTAGATTGATGAATCAATTGAAACAGTATGCACGTGATGTAGATGGACTGACACATTTTCTCACGTATGCTGACAACAATGCTATTGGCTATTTCATCAAACAAGGATTTACCAAAGAGATTCACTTGGAGAGAGATCGATGGGAAGGTTATATAAAGGATTATGATGGGGGAACTCTCATGGAATGTGAGATTGACCCAAAGCTTCCTTATACTGATTTATCAACTATGATCCGTCGGCAAAGACAGGCACTATATGAAAAGATTAGAGAACTATCAAACTGTCACAATATTGTTTATGCTGGAATTGATTTTCAGAAGAGATCAGAAGCTGGAGGTATTCCTAATAGAATTGTTGATGACATCCCTGGTTTGGAAGAGGCTGGATGGACTCCTGATATGTACGGTCATTCGCGGTTTAGAGTTTTAGATGGTTCTACTGACCATGCTACAAACCTAAAACATTTAACTGAGTTTATGCGTTCAATTCTAAAGGAAATGCATGATCACCCTGATGCTTGGCCATTCAAGGAGCCTGTTGATGCACAGAGTGTTCCTGGTTATTATGAAATCATAAAAAATCCAATGGATCTAAAGACAATGAGTGAGAGGCTGGAGTCGGAACAATATTACGTCACATTTGAGATGTTTCTCGCGGATGCCAGAAGAATGTTTGAGAATGCACGTATCTATAATTCTCCAAAAACCATATATTACAAATGTGCTACAAGACTAGAAGAACACTTTCAAAGCAAAGTGACAACGCTCCTCCAGTCAGGCTTCAAAATTCAGTAG
Protein sequence

>MsaT043445.1

MESQTGPSAFATSSIHKRKHISEDHAPPFHPSRDSSMHNFTGSVNSSAATSGSVPDFVVKEEAATNIFTEKLQIRGGYSAREENLKKKEESGLLKFECVCNDGVDDHMVSLIALKNIFAKQLPNMPKEYIVRLVMDRNHKSIMVIREHNRVVGGVTYRPYANQRFAEIAFCAISDDQQVKGYGTRLMNQLKQYARDVDGLTHFLTYADNNAIGYFIKQGFTKEIHLERDRWEGYIKDYDGGTLMECEIDPKLPYTDLSTMIRRQRQALYEKIRELSNCHNIVYAGIDFQKRSEAGGIPNRIVDDIPGLEEAGWTPDMYGHSRFRVLDGSTDHATNLKHLTEFMRSILKEMHDHPDAWPFKEPVDAQSVPGYYEIIKNPMDLKTMSERLESEQYYVTFEMFLADARRMFENARIYNSPKTIYYKCATRLEEHFQSKVTTLLQSGFKIQ*