AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG029729

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029729 MtrunA17_Chr5g0447381 95.513 312 14 0 15 326 81 392 0.0 559
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029729 AT5G35770.1 42.053 302 155 6 27 323 157 443 3.19e-66 215

Find 110 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGACTCTTCTATACATTTAT+TGG 0.108359 5:+80654377 MsaT029729.1:CDS
TTATTAGGGTGCATGAATTT+AGG 0.164199 5:+80654189 MsaT029729.1:CDS
GTCTACATTGCTATTATTAA+TGG 0.164360 5:+80653667 MsaT029729.1:CDS
TCATGGTTAAGAGGTTTATT+AGG 0.167477 5:+80654174 MsaT029729.1:CDS
TGCCATCCTTGAACCGTTTC+CGG 0.223972 5:-80653886 None:intergenic
GCGTGAGTAGGTTTAGATTA+AGG 0.227131 5:+80654148 MsaT029729.1:CDS
CCTGCACGACGGGCAATTAA+TGG 0.265227 5:+80653715 MsaT029729.1:CDS
CCTTCTCCATCATCTCTAAC+TGG 0.275457 5:-80654297 None:intergenic
GGGTATGTTATAACATATTC+TGG 0.276633 5:+80654210 MsaT029729.1:CDS
TCCGTTTCGGGAATTGTAAT+TGG 0.284357 5:+80653607 MsaT029729.1:CDS
TATTAGGGTGCATGAATTTA+GGG 0.289123 5:+80654190 MsaT029729.1:CDS
GTGCACATGTTAGCACATTT+TGG 0.290721 5:+80653548 MsaT029729.1:CDS
CGTGAGTAGGTTTAGATTAA+GGG 0.323549 5:+80654149 MsaT029729.1:CDS
CATGGTTAAGAGGTTTATTA+GGG 0.328702 5:+80654175 MsaT029729.1:CDS
CTCGCCTTCGCGAGATTAGA+TGG 0.334905 5:+80653640 MsaT029729.1:CDS
GCAGGAATGGGCCCGGGTAT+TGG 0.339605 5:-80653697 None:intergenic
TCTACATTGCTATTATTAAT+GGG 0.340728 5:+80653668 MsaT029729.1:CDS
TCCAACCATGGTCTTCTATT+CGG 0.353047 5:+80653571 MsaT029729.1:CDS
ATAACATATTCTGGTGGGTC+TGG 0.372539 5:+80654219 MsaT029729.1:CDS
GGCAGCGGCAGATGAGGTTT+TGG 0.378783 5:-80653455 None:intergenic
TATATGCTGGCCATGCGGGC+GGG 0.383931 5:+80653800 MsaT029729.1:CDS
AGCTACTACATATTCTCTTT+CGG 0.384245 5:-80653953 None:intergenic
ACGGAACAGCGCGTGTTTGT+TGG 0.386206 5:+80653847 MsaT029729.1:CDS
AGGATTCATTGTAGGATCAT+TGG 0.389444 5:+80654050 MsaT029729.1:CDS
CGTGATGTAGTGTCCATAAC+AGG 0.395954 5:+80654030 MsaT029729.1:CDS
GGTTTAGATTAAGGGCTTCA+TGG 0.398867 5:+80654157 MsaT029729.1:CDS
TTCATTAACCGATCCGGAAA+CGG 0.410471 5:+80653873 MsaT029729.1:CDS
CCCGAAACGGATTGTGAAAA+CGG 0.417479 5:-80653595 None:intergenic
ACATCACGTAATAGAACCTC+TGG 0.422231 5:-80654015 None:intergenic
AGCTTGCACAAGTACAAGAT+TGG 0.422430 5:+80653972 MsaT029729.1:CDS
ATATGCTGGCCATGCGGGCG+GGG 0.423497 5:+80653801 MsaT029729.1:CDS
ACCGACCGGTTCAACTAATT+CGG 0.424968 5:-80653917 None:intergenic
TCCAATTACAATTCCCGAAA+CGG 0.436742 5:-80653608 None:intergenic
GTCGCATTGCCGCAGGCGGG+TGG 0.437080 5:-80653494 None:intergenic
CGGGCCCATTCCTGCACGAC+GGG 0.438206 5:+80653705 MsaT029729.1:CDS
GGCTCTAGTCGTTGGTGGGT+TGG 0.439072 5:+80653775 MsaT029729.1:CDS
TCCTACAATGAATCCTGTTA+TGG 0.441153 5:-80654043 None:intergenic
TCCTTGAACCGTTTCCGGAT+CGG 0.441558 5:-80653881 None:intergenic
CCATTAATTGCCCGTCGTGC+AGG 0.443293 5:-80653715 None:intergenic
TTAAGGGCTTCATGGTTAAG+AGG 0.447013 5:+80654165 MsaT029729.1:CDS
AATTGCCCGTCGTGCAGGAA+TGG 0.458917 5:-80653710 None:intergenic
ATTGCCCGTCGTGCAGGAAT+GGG 0.459648 5:-80653709 None:intergenic
ACCGATCCGGAAACGGTTCA+AGG 0.460400 5:+80653880 MsaT029729.1:CDS
CCGTCGTGCAGGAATGGGCC+CGG 0.461152 5:-80653704 None:intergenic
ATGGGCCCGGGTATTGGTCC+AGG 0.465999 5:-80653691 None:intergenic
GGTTTATATGCTGGCCATGC+GGG 0.468935 5:+80653796 MsaT029729.1:CDS
TGGTGGGTTGGTTTATATGC+TGG 0.470180 5:+80653787 MsaT029729.1:CDS
GTTAACCGAATTAGTTGAAC+CGG 0.476077 5:+80653912 MsaT029729.1:CDS
TCGCATTGCCGCAGGCGGGT+GGG 0.478547 5:-80653493 None:intergenic
TGCCGCAGGCGGGTGGGTGT+CGG 0.480284 5:-80653487 None:intergenic
TTGCCGGCTCTAGTCGTTGG+TGG 0.480637 5:+80653770 MsaT029729.1:CDS
CACTGCCGTCGCATTGCCGC+AGG 0.480934 5:-80653501 None:intergenic
TGCCGTCGCATTGCCGCAGG+CGG 0.481033 5:-80653498 None:intergenic
CATATTCTCTTTCGGTGACT+CGG 0.481267 5:-80653945 None:intergenic
GTCTGGTTTGTTGAGAGTGT+GGG 0.482663 5:+80654236 MsaT029729.1:CDS
TGCCGGCTCTAGTCGTTGGT+GGG 0.484033 5:+80653771 MsaT029729.1:CDS
ATTGCTATTATTAATGGGCC+TGG 0.486088 5:+80653673 MsaT029729.1:CDS
GGAGTATTAGTAGAATTTGC+CGG 0.489467 5:+80653754 MsaT029729.1:CDS
ACGCTCCCAGTTAGAGATGA+TGG 0.491914 5:+80654291 MsaT029729.1:CDS
ATCTAATCTCGCGAAGGCGA+GGG 0.494316 5:-80653638 None:intergenic
TCAAATATGGGACGCGCACA+CGG 0.496233 5:+80653828 MsaT029729.1:CDS
CCGAAACGGATTGTGAAAAC+GGG 0.497568 5:-80653594 None:intergenic
TGGCGGTTCATTAACCGATC+CGG 0.497586 5:+80653867 MsaT029729.1:CDS
CATCTAATCTCGCGAAGGCG+AGG 0.498179 5:-80653639 None:intergenic
TTATATGCTGGCCATGCGGG+CGG 0.503776 5:+80653799 MsaT029729.1:CDS
GAACAGCGCGTGTTTGTTGG+CGG 0.505393 5:+80653850 MsaT029729.1:CDS
TGTCGGAGAGAGTGAGGCAG+CGG 0.506671 5:-80653470 None:intergenic
AATGGTGATGTTGTCAATAA+CGG 0.506851 5:+80653733 MsaT029729.1:CDS
TCCATAACAGGATTCATTGT+AGG 0.509536 5:+80654042 MsaT029729.1:CDS
GGTCTGGTTTGTTGAGAGTG+TGG 0.510453 5:+80654235 MsaT029729.1:CDS
CTTCTCCATCATCTCTAACT+GGG 0.510502 5:-80654296 None:intergenic
GCCGTCGCATTGCCGCAGGC+GGG 0.513459 5:-80653497 None:intergenic
AACCCACCAACGACTAGAGC+CGG 0.516179 5:-80653773 None:intergenic
GAGTGAGGCAGCGGCAGATG+AGG 0.527259 5:-80653461 None:intergenic
ACCCGCCTGCGGCAATGCGA+CGG 0.530479 5:+80653496 MsaT029729.1:CDS
GTGGTCCCACAATATGATCC+AGG 0.534362 5:+80653423 None:intergenic
GTGATACACAATCGCGCCGC+AGG 0.537724 5:-80654270 None:intergenic
CGTCGTGCAGGAATGGGCCC+GGG 0.546050 5:-80653703 None:intergenic
AATTTGCCGGCTCTAGTCGT+TGG 0.546832 5:+80653767 MsaT029729.1:CDS
GTGGTGGAAAGAAGTGGTGT+TGG 0.551066 5:+80654096 MsaT029729.1:CDS
ATGTTATAACATATTCTGGT+GGG 0.553968 5:+80654214 MsaT029729.1:CDS
GGTGGGTGTCGGAGAGAGTG+AGG 0.556781 5:-80653476 None:intergenic
AATGGGCCTGGACCAATACC+CGG 0.556865 5:+80653685 MsaT029729.1:CDS
GCCGAATAGAAGACCATGGT+TGG 0.558339 5:-80653572 None:intergenic
TTTGTTGTGGTGGAAAGAAG+TGG 0.565574 5:+80654090 MsaT029729.1:CDS
TTTGAAAAGCCCCGCCCGCA+TGG 0.566257 5:-80653810 None:intergenic
GAAGTGGTGTTGGAACTGTT+CGG 0.568741 5:+80654106 MsaT029729.1:CDS
ATGGGCCTGGACCAATACCC+GGG 0.577553 5:+80653686 MsaT029729.1:CDS
GTGACTCGGACTCGACCGAC+CGG 0.586956 5:-80653931 None:intergenic
ATCCGGAAACGGTTCAAGGA+TGG 0.588593 5:+80653884 MsaT029729.1:CDS
TGGTTTATATGCTGGCCATG+CGG 0.599044 5:+80653795 MsaT029729.1:CDS
ATAATTTCGAGCGCGTGAGT+AGG 0.604680 5:+80654136 MsaT029729.1:CDS
CTCCGACACCCACCCGCCTG+CGG 0.611172 5:+80653485 MsaT029729.1:CDS
CCAGTTAGAGATGATGGAGA+AGG 0.611674 5:+80654297 MsaT029729.1:CDS
GATGGAGAAGGACAAGTACA+TGG 0.613846 5:+80654309 MsaT029729.1:CDS
ATCTCCATCTAATCTCGCGA+AGG 0.620003 5:-80653644 None:intergenic
TATGTTATAACATATTCTGG+TGG 0.621514 5:+80654213 MsaT029729.1:CDS
ATCATTGGATGTTAGCCATG+AGG 0.625954 5:+80654065 MsaT029729.1:CDS
TGCTAACATGTGCACCGGTG+TGG 0.634853 5:-80653540 None:intergenic
ACAAGTACATGGCAATAGCA+TGG 0.638195 5:+80654320 MsaT029729.1:CDS
CGGTGTGGAGATCGAAGAGT+CGG 0.650728 5:-80653525 None:intergenic
CCGGGCCCATTCCTGCACGA+CGG 0.655323 5:+80653704 MsaT029729.1:CDS
AAATGTGCTAACATGTGCAC+CGG 0.656474 5:-80653545 None:intergenic
CATCACGTAATAGAACCTCT+GGG 0.662087 5:-80654014 None:intergenic
CGACTCTTCGATCTCCACAC+CGG 0.677791 5:+80653526 MsaT029729.1:CDS
ACCGAATTAGTTGAACCGGT+CGG 0.683053 5:+80653916 MsaT029729.1:CDS
TTTCAACTTAAGAAACCCAG+AGG 0.687724 5:+80653999 MsaT029729.1:CDS
GTGGGACATACATGAACCTG+CGG 0.688958 5:+80654254 MsaT029729.1:CDS
GGTTGCTAATCAAACTCACG+TGG 0.706916 5:+80654341 MsaT029729.1:CDS
ACGGGCCGAATAGAAGACCA+TGG 0.711737 5:-80653576 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 80653436 80654416 80653436 ID=MsaG029729
Chr5 mRNA 80653436 80654416 80653436 ID=MsaT029729.1;Parent=MsaG029729
Chr5 exon 80653436 80654416 80653436 ID=MsaT029729.1.exon1;Parent=MsaT029729.1
Chr5 CDS 80653436 80654416 80653436 ID=cds.MsaT029729.1;Parent=MsaT029729.1
Gene Sequence

>MsaT029729.1

ATGATCCAGGAGATCACCACCAAAACCTCATCTGCCGCTGCCTCACTCTCTCCGACACCCACCCGCCTGCGGCAATGCGACGGCAGTGTCCGACTCTTCGATCTCCACACCGGTGCACATGTTAGCACATTTTGGTCCAACCATGGTCTTCTATTCGGCCCGTTTTCACAATCCGTTTCGGGAATTGTAATTGGAAGCTCTACCCTCGCCTTCGCGAGATTAGATGGAGATGTCTACATTGCTATTATTAATGGGCCTGGACCAATACCCGGGCCCATTCCTGCACGACGGGCAATTAATGGTGATGTTGTCAATAACGGAGTATTAGTAGAATTTGCCGGCTCTAGTCGTTGGTGGGTTGGTTTATATGCTGGCCATGCGGGCGGGGCTTTTCAAATATGGGACGCGCACACGGAACAGCGCGTGTTTGTTGGCGGTTCATTAACCGATCCGGAAACGGTTCAAGGATGGCATATGTTAACCGAATTAGTTGAACCGGTCGGTCGAGTCCGAGTCACCGAAAGAGAATATGTAGTAGCTTGCACAAGTACAAGATTGGTTTGTTTCAACTTAAGAAACCCAGAGGTTCTATTACGTGATGTAGTGTCCATAACAGGATTCATTGTAGGATCATTGGATGTTAGCCATGAGGTTTTTGTTGTGGTGGAAAGAAGTGGTGTTGGAACTGTTCGGCGCGTGAATAATTTCGAGCGCGTGAGTAGGTTTAGATTAAGGGCTTCATGGTTAAGAGGTTTATTAGGGTGCATGAATTTAGGGTATGTTATAACATATTCTGGTGGGTCTGGTTTGTTGAGAGTGTGGGACATACATGAACCTGCGGCGCGATTGTGTATCACGCTCCCAGTTAGAGATGATGGAGAAGGACAAGTACATGGCAATAGCATGGTTGCTAATCAAACTCACGTGGCTATCTCATTTAATGACTCTTCTATACATTTATTGGATTTTAGTGTACAGTAA
Protein sequence

>MsaT029729.1

MIQEITTKTSSAAASLSPTPTRLRQCDGSVRLFDLHTGAHVSTFWSNHGLLFGPFSQSVSGIVIGSSTLAFARLDGDVYIAIINGPGPIPGPIPARRAINGDVVNNGVLVEFAGSSRWWVGLYAGHAGGAFQIWDAHTEQRVFVGGSLTDPETVQGWHMLTELVEPVGRVRVTEREYVVACTSTRLVCFNLRNPEVLLRDVVSITGFIVGSLDVSHEVFVVVERSGVGTVRRVNNFERVSRFRLRASWLRGLLGCMNLGYVITYSGGSGLLRVWDIHEPAARLCITLPVRDDGEGQVHGNSMVANQTHVAISFNDSSIHLLDFSVQ*