AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036011

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036011 MtrunA17_Chr1g0172971 75.758 132 17 1 1 132 1 117 2.07e-58 202
MsaG036011 MtrunA17_Chr3g0088371 76.415 106 22 1 405 507 86 191 7.90e-44 153
MsaG036011 MtrunA17_Chr3g0082121 33.071 127 81 1 209 335 377 499 7.89e-18 86.7
MsaG036011 MtrunA17_Chr2g0324011 27.007 137 96 2 211 347 353 485 7.52e-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

Find 82 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCATGCTGAGTTGGACTTTA+AGG 0.133287 7:+25966694 MsaT036011.1:CDS
AGTCGCTTCTTTGACTTAAT+TGG 0.149305 7:-25967511 None:intergenic
CTTTAGTCATTTCAACATTA+TGG 0.194287 7:+25966652 MsaT036011.1:CDS
TTCTTTGACTTAATTGGATT+TGG 0.266522 7:-25967505 None:intergenic
TCTGTTGTTGGCCTGTTGTT+AGG 0.292589 7:-25965075 None:intergenic
CGATCATGATCTTCAAAACT+TGG 0.305304 7:-25966990 None:intergenic
TTACTTCTCGAAATGATCTA+AGG 0.311482 7:-25965266 None:intergenic
GCATACGATTTGCGTAAGTT+TGG 0.338878 7:-25966508 None:intergenic
CTCGACGGTGTTCTTGAAGC+TGG 0.383392 7:+25967349 MsaT036011.1:CDS
TTTGTTTCTTCCGATTGATA+AGG 0.384635 7:-25967573 None:intergenic
GAGAACGTCTTATGAAGTTA+TGG 0.394356 7:+25965341 MsaT036011.1:CDS
TTTGGTCTTTCTTTGAACTT+TGG 0.398856 7:-25967487 None:intergenic
TTCCTTCAAATACTATTATG+AGG 0.399583 7:+25966826 MsaT036011.1:CDS
GAAGGCCTACCTCAGACTTT+AGG 0.402909 7:+25966477 MsaT036011.1:CDS
CGTTATGTTTGTAACAAAGA+AGG 0.427485 7:+25965027 MsaT036011.1:CDS
CGAGAAGTAAATGAAGTTCA+AGG 0.430014 7:+25965279 MsaT036011.1:CDS
GCTGTTGGTGAAACATCTGC+TGG 0.433888 7:+25967448 MsaT036011.1:CDS
GAGGAGTTGCTTCTTTCTAA+AGG 0.437852 7:+25967382 MsaT036011.1:CDS
TCCATGATTCTTTATTGCTA+GGG 0.444266 7:-25964864 None:intergenic
TTCCATGATTCTTTATTGCT+AGG 0.445442 7:-25964865 None:intergenic
TTCTTTGAACTTTGGTGCGG+TGG 0.447203 7:-25967479 None:intergenic
GAAAGGGTTGGTTGTAAAGC+TGG 0.447509 7:+25965144 MsaT036011.1:CDS
TATGCATTGGTCTTCAGCTT+GGG 0.450920 7:+25966526 MsaT036011.1:CDS
ATGTGTATAAGATATATAGA+TGG 0.452819 7:+25965196 MsaT036011.1:CDS
ACATCAACTTCATCTGATAG+TGG 0.459514 7:+25964739 MsaT036011.1:CDS
CTTGCTTTGCATTTATTCAC+AGG 0.460007 7:+25966792 MsaT036011.1:CDS
GCTCTTATAAATTCTAAAGC+TGG 0.462891 7:+25965309 MsaT036011.1:CDS
GACCGCATCAGCTGACTGTT+GGG 0.463150 7:-25966746 None:intergenic
ACCTGTGGACTGTCTGTTGT+TGG 0.465317 7:-25965087 None:intergenic
AGAACGTCTTATGAAGTTAT+GGG 0.466325 7:+25965342 MsaT036011.1:CDS
GTTTACTTAATCCTAACAAC+AGG 0.470860 7:+25965064 MsaT036011.1:CDS
GGCAGAAATTCCTTATCAAT+CGG 0.471938 7:+25967563 MsaT036011.1:CDS
ATCATGATCGATTTGATGAA+AGG 0.476999 7:+25967003 MsaT036011.1:CDS
GTATGCATTGGTCTTCAGCT+TGG 0.479582 7:+25966525 MsaT036011.1:CDS
CTCCTCATAATAGTATTTGA+AGG 0.485089 7:-25966828 None:intergenic
GATCATGATCTTCAAAACTT+GGG 0.487945 7:-25966989 None:intergenic
TATGAGGAGGACACAACAAA+AGG 0.490908 7:+25966842 MsaT036011.1:CDS
ACATTATGGTTCAGAGAATG+AGG 0.494022 7:+25966666 MsaT036011.1:CDS
CCCCTAGCAATAAAGAATCA+TGG 0.497001 7:+25964863 MsaT036011.1:CDS
TTGAAGACTTAGATGGCGTC+GGG 0.497790 7:-25967417 None:intergenic
TGAATAAATGCAAAGCAAGA+AGG 0.503349 7:-25966788 None:intergenic
TCTTTGAACTTTGGTGCGGT+GGG 0.503874 7:-25967478 None:intergenic
TTACAACCAACCCTTTCCTC+AGG 0.505082 7:-25965138 None:intergenic
CTGTTGGTGAAACATCTGCT+GGG 0.506522 7:+25967449 MsaT036011.1:CDS
AGCTGGAATATATTTGAAGC+TGG 0.507410 7:+25965161 MsaT036011.1:CDS
GAGGGATAATCATGCTGAGT+TGG 0.508852 7:+25966685 MsaT036011.1:CDS
CTAAGGTAACACGAATGCTC+TGG 0.517941 7:-25965249 None:intergenic
GAATAAATGCAAAGCAAGAA+GGG 0.521406 7:-25966787 None:intergenic
GTCAGCATGAATCATTGCTA+GGG 0.522802 7:-25964824 None:intergenic
GGTAATTATGCATATAACAC+TGG 0.523547 7:+25964931 MsaT036011.1:CDS
TAACAAAGAAGGTTTCAAGA+AGG 0.525236 7:+25965038 MsaT036011.1:CDS
TAAGATATATAGATGGGATG+TGG 0.528498 7:+25965203 MsaT036011.1:CDS
CATAATAGTATTTGAAGGAA+AGG 0.529686 7:-25966823 None:intergenic
GAATGCTCTGGTTTATGTAA+TGG 0.534744 7:-25965237 None:intergenic
CCATGATTCTTTATTGCTAG+GGG 0.537011 7:-25964863 None:intergenic
TGTCAGCATGAATCATTGCT+AGG 0.540740 7:-25964825 None:intergenic
ATGAGGAGGACACAACAAAA+GGG 0.542065 7:+25966843 MsaT036011.1:CDS
AATCGAACAAGTGAGTGGTC+TGG 0.543268 7:-25966629 None:intergenic
AACAAAGAAGGTTTCAAGAA+GGG 0.545537 7:+25965039 MsaT036011.1:CDS
GGCCTACCTCAGACTTTAGG+TGG 0.565384 7:+25966480 MsaT036011.1:CDS
TTTGAAGACTTAGATGGCGT+CGG 0.565828 7:-25967418 None:intergenic
GGACCGCATCAGCTGACTGT+TGG 0.570066 7:-25966747 None:intergenic
ATCATGATCTTCAAAACTTG+GGG 0.577988 7:-25966988 None:intergenic
TCTTCAAAAGTACCTGCTGT+TGG 0.580583 7:+25967433 MsaT036011.1:CDS
ATCCCAACAGTCAGCTGATG+CGG 0.597403 7:+25966744 MsaT036011.1:CDS
CTTACGCAAATCGTATGCAT+TGG 0.597846 7:+25966513 MsaT036011.1:CDS
TGTGTATAAGATATATAGAT+GGG 0.601002 7:+25965197 MsaT036011.1:CDS
TCACTGATTCATGCTGAGAG+TGG 0.606950 7:+25964784 MsaT036011.1:CDS
CTTCAAATACTATTATGAGG+AGG 0.607664 7:+25966829 MsaT036011.1:CDS
GCAGATGTTTCACCAACAGC+AGG 0.609951 7:-25967445 None:intergenic
GCCAACAACAGACAGTCCAC+AGG 0.619933 7:+25965086 MsaT036011.1:CDS
TTCACAAACTCAATAACCTG+TGG 0.626760 7:-25965102 None:intergenic
TGAAGCTTTATCAGTGATTG+TGG 0.633753 7:+25967606 MsaT036011.1:CDS
TGTTGGTGAAACATCTGCTG+GGG 0.639082 7:+25967450 MsaT036011.1:CDS
CATTATGGTTCAGAGAATGA+GGG 0.643278 7:+25966667 MsaT036011.1:CDS
GACAAGCCACCTAAAGTCTG+AGG 0.653221 7:-25966486 None:intergenic
TAAAGAATCGAACAAGTGAG+TGG 0.654901 7:-25966634 None:intergenic
TCTTTCTTTGAACTTTGGTG+CGG 0.659854 7:-25967482 None:intergenic
AATAAATGCAAAGCAAGAAG+GGG 0.664515 7:-25966786 None:intergenic
TCAGCATGAATCATTGCTAG+GGG 0.681156 7:-25964823 None:intergenic
AGCCACCTAAAGTCTGAGGT+AGG 0.684957 7:-25966482 None:intergenic
AGGGGTGTACTTGTTTACAA+CGG 0.695086 7:-25966768 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 25964730 25967639 25964730 ID=MsaG036011
Chr7 mRNA 25964730 25967639 25964730 ID=MsaT036011.1;Parent=MsaG036011
Chr7 exon 25964730 25965363 25964730 ID=MsaT036011.1.exon1;Parent=MsaT036011.1
Chr7 CDS 25964730 25965363 25964730 ID=cds.MsaT036011.1;Parent=MsaT036011.1
Chr7 exon 25966420 25966889 25966420 ID=MsaT036011.1.exon2;Parent=MsaT036011.1
Chr7 CDS 25966420 25966889 25966420 ID=cds.MsaT036011.1;Parent=MsaT036011.1
Chr7 exon 25966970 25967075 25966970 ID=MsaT036011.1.exon3;Parent=MsaT036011.1
Chr7 CDS 25966970 25967075 25966970 ID=cds.MsaT036011.1;Parent=MsaT036011.1
Chr7 exon 25967326 25967639 25967326 ID=MsaT036011.1.exon4;Parent=MsaT036011.1
Chr7 CDS 25967326 25967639 25967326 ID=cds.MsaT036011.1;Parent=MsaT036011.1
Gene Sequence

>MsaT036011.1

ATGGATTTGACATCAACTTCATCTGATAGTGGACATCTGAGTGTTGAAACTTCATCACTGATTCATGCTGAGAGTGGACAATTGAGTGTTACTCCCCTAGCAATGATTCATGCTGACAGTTCTCAATGTTACTCCCCTAGCAATAAAGAATCATGGAAGTCTTTAGTCTTTCAATCTATTAAAGAGATTGAAGATTTTTATGGTAATTATGCATATAACACTGGATTTTCTATTAGGACTATGTTGAAGTCGAAGAATAATTCACAAAACAAGAAATCTGATAAAGTACATTATTTGCGTTATGTTTGTAACAAAGAAGGTTTCAAGAAGGGAAGTTTACTTAATCCTAACAACAGGCCAACAACAGACAGTCCACAGGTTATTGAGTTTGTGAAAGTGAAAGAAAAACCTGAGGAAAGGGTTGGTTGTAAAGCTGGAATATATTTGAAGCTGGATGAAGTTTTGAATGTGTATAAGATATATAGATGGGATGTGGATCACTGTCATCCATTACATAAACCAGAGCATTCGTGTTACCTTAGATCATTTCGAGAAGTAAATGAAGTTCAAGGACAACTAGCTCTTATAAATTCTAAAGCTGGAATGTCGATGAGAACGTCTTATGAAGTTATGGATGATGAATCAGATTTTGACTATAATTGGGATCAGATGATGATAAATTGTTTTGATGGAAGGCCTACCTCAGACTTTAGGTGGCTTGTCCAAACTTACGCAAATCGTATGCATTGGTCTTCAGCTTGGGTCAAGTCACATTTTACAGCTGGTCTGAAAACGACTCAGTTAAGTGAGTCTTTCAATGCTTTTCTTCGTGGATTTCTACAGCCAGACCACTCACTTGTTCGATTCTTTAGTCATTTCAACATTATGGTTCAGAGAATGAGGGATAATCATGCTGAGTTGGACTTTAAGGCTGCAAACACTAGAACAAAAAATAATTATCCCAACAGTCAGCTGATGCGGTCCGTTGTAAACAAGTACACCCCTTCTTGCTTTGCATTTATTCACAGGCAGTATGACCTTTCCTTCAAATACTATTATGAGGAGGACACAACAAAAGGGTCTGCCTTTGAGAAGTTTTTCAAAAACTTCAAGAAAACGTTTCCCCAAGTTTTGAAGATCATGATCGATTTGATGAAAGGCTTGTCACAGTTGACATTAGAAGCAAAAGTTTTAGTTGTTCATGTCGTATATCCAGAGTCATCTAAAATTTTTCTCGACGGTGTTCTTGAAGCTGGAAAAAAGGCAGAGGAGTTGCTTCTTTCTAAAGGTATTCGTACATGCCCGACGCCATCTAAGTCTTCAAAAGTACCTGCTGTTGGTGAAACATCTGCTGGGGTGAAGCCCACCGCACCAAAGTTCAAAGAAAGACCAAATCCAATTAAGTCAAAGAAGCGACTTAAAAGTGATTATGAAAAAGCTAGAGAAAGGCAGAAATTCCTTATCAATCGGAAGAAACAAAAGAGAGATGATGAAGCTTTATCAGTGATTGTGGTCCCTGATTGA
Protein sequence

>MsaT036011.1

MDLTSTSSDSGHLSVETSSLIHAESGQLSVTPLAMIHADSSQCYSPSNKESWKSLVFQSIKEIEDFYGNYAYNTGFSIRTMLKSKNNSQNKKSDKVHYLRYVCNKEGFKKGSLLNPNNRPTTDSPQVIEFVKVKEKPEERVGCKAGIYLKLDEVLNVYKIYRWDVDHCHPLHKPEHSCYLRSFREVNEVQGQLALINSKAGMSMRTSYEVMDDESDFDYNWDQMMINCFDGRPTSDFRWLVQTYANRMHWSSAWVKSHFTAGLKTTQLSESFNAFLRGFLQPDHSLVRFFSHFNIMVQRMRDNHAELDFKAANTRTKNNYPNSQLMRSVVNKYTPSCFAFIHRQYDLSFKYYYEEDTTKGSAFEKFFKNFKKTFPQVLKIMIDLMKGLSQLTLEAKVLVVHVVYPESSKIFLDGVLEAGKKAEELLLSKGIRTCPTPSKSSKVPAVGETSAGVKPTAPKFKERPNPIKSKKRLKSDYEKARERQKFLINRKKQKRDDEALSVIVVPD*