AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038456

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038456 MtrunA17_Chr7g0246961 97.802 546 12 0 1 546 1 546 0.0 1103
MsaG038456 MtrunA17_Chr4g0042701 29.664 327 156 14 2 318 49 311 4.05e-17 84.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038456 AT1G01920.2 63.091 550 190 5 1 543 3 546 0.0 704
MsaG038456 AT1G01920.1 61.043 575 186 7 1 543 3 571 0.0 692
MsaG038456 AT1G01920.5 64.056 498 171 4 5 495 7 503 0.0 648
MsaG038456 AT1G01920.4 63.273 501 173 4 48 543 8 502 0.0 646
MsaG038456 AT1G01920.3 65.501 429 140 4 5 426 7 434 0.0 576
MsaG038456 AT1G14030.1 26.415 318 150 13 8 310 49 297 1.00e-12 70.9

Find 107 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCACTGCATTTAAGGTTAA+TGG 0.142609 7:-76774499 MsaT038456.1:intron
CTAGGGCAAATTCAGTATTT+TGG 0.177551 7:-76777603 MsaT038456.1:intron
GTCTCCATGTATCTTCTTTC+CGG 0.213446 7:-76776771 MsaT038456.1:intron
GATATGCTTCCAACCACTTT+TGG 0.251963 7:-76779042 MsaT038456.1:CDS
TGGGAGGTTTGCGGTGATTC+TGG 0.254285 7:-76774804 MsaT038456.1:CDS
TCCATTATCCAGCAGAGTTT+TGG 0.254544 7:+76775462 None:intergenic
CCCAAAACTCTGCTGGATAA+TGG 0.262041 7:-76775463 MsaT038456.1:CDS
TCCCTTGTTGCCATAACTAA+TGG 0.277594 7:+76776537 None:intergenic
CATACTGTTTGCTATCTTCC+TGG 0.278315 7:+76774406 None:intergenic
TCAACTTCCCATGTTGCTAT+TGG 0.310003 7:+76776822 None:intergenic
GATAATTGTCTCTCCCCTTC+AGG 0.314552 7:+76774852 None:intergenic
CGAGAAATTTCCATTAGTTA+TGG 0.330983 7:-76776547 MsaT038456.1:CDS
ATGGACCTTGAAGAGCATTC+TGG 0.342337 7:-76774480 MsaT038456.1:CDS
ATATCGTGCAACTGAGTTAC+AGG 0.349217 7:-76778965 MsaT038456.1:intron
CTGTTCCAGAATGCTCTTCA+AGG 0.349550 7:+76774475 None:intergenic
TTCTGTCACATAAAGCTTGT+TGG 0.356885 7:-76774876 MsaT038456.1:intron
CTGTATGGTTTCGTCATTGA+TGG 0.361585 7:-76775856 MsaT038456.1:CDS
TCAAACAATGCTCTACATTC+TGG 0.368765 7:+76779247 None:intergenic
CAGTGCAAGGAGACACTGTT+TGG 0.372176 7:-76777239 MsaT038456.1:CDS
TAGATGTCCAGTCAGCAATA+TGG 0.372524 7:-76774824 MsaT038456.1:CDS
TGATTGCTTCTGAAGGATAA+TGG 0.373461 7:+76775697 None:intergenic
ACAAAGTTTGCAACTATAGT+TGG 0.373492 7:-76775393 MsaT038456.1:CDS
GGAGACACTGTTTGGGTTGA+GGG 0.388987 7:-76777231 MsaT038456.1:CDS
AACTTTCTTGCAGTGGCTAC+AGG 0.393679 7:-76780150 MsaT038456.1:intron
TGGGTTGAGGGTCTTGTCCC+TGG 0.398663 7:-76777219 MsaT038456.1:CDS
TGATGAACATCTTGCATCTC+AGG 0.399499 7:+76777538 None:intergenic
AAAGTTTCGAGCTTTGCATC+TGG 0.402607 7:+76780167 None:intergenic
AAGTACTGTGATTCCAGAAA+AGG 0.405051 7:-76779965 MsaT038456.1:CDS
CTTCCTGGCTATCAATGATA+AGG 0.405078 7:+76774421 None:intergenic
TGTAGAGCATTGTTTGAAGA+AGG 0.407729 7:-76779241 MsaT038456.1:CDS
TGTGCTTTGAAGATTTCCTT+TGG 0.411420 7:-76777704 MsaT038456.1:intron
GGATCTTGCAATACCCTCAT+TGG 0.414764 7:+76779280 None:intergenic
TGTGCTATGTGTAGTTTCCT+TGG 0.421059 7:+76777260 None:intergenic
CCAAAGTGTATTTCCAAAAG+TGG 0.431664 7:+76779029 None:intergenic
CAGGAACTTCTATATCTGTA+TGG 0.433043 7:-76775871 MsaT038456.1:CDS
AGGAGACACTGTTTGGGTTG+AGG 0.441525 7:-76777232 MsaT038456.1:CDS
TAGTTTCATACAAATTCAAC+AGG 0.442700 7:+76778211 None:intergenic
AGATGTCCAGTCAGCAATAT+GGG 0.462315 7:-76774823 MsaT038456.1:CDS
GGCCCTTATCATTGATAGCC+AGG 0.463013 7:-76774424 MsaT038456.1:CDS
GTTTGCGCAAGGATTCTCTA+TGG 0.464632 7:-76779171 MsaT038456.1:CDS
TTCCTGGCTATCAATGATAA+GGG 0.467148 7:+76774422 None:intergenic
GATGGGACTGGCTTAACAAC+AGG 0.468779 7:-76776801 MsaT038456.1:CDS
ACAAGCTTATCTACATAAGA+TGG 0.470453 7:+76775352 None:intergenic
CTACATTCTGGTCCTAGAAA+AGG 0.477386 7:+76779259 None:intergenic
CTCATCCTCTTGCATGGCTA+TGG 0.477615 7:+76775297 None:intergenic
TGTGATTCCAGAAAAGGGTT+TGG 0.479557 7:-76779959 MsaT038456.1:CDS
ATAAAGCTTGTTGGACCTGA+AGG 0.482872 7:-76774867 MsaT038456.1:intron
AGTACTGTGATTCCAGAAAA+GGG 0.485791 7:-76779964 MsaT038456.1:CDS
AGTGTATTTCCAAAAGTGGT+TGG 0.489103 7:+76779033 None:intergenic
AAGGTAGCCATAAATTTCTC+AGG 0.491005 7:+76775325 None:intergenic
AAGCCAGCTTCTTGAAGTGC+AGG 0.498998 7:-76775649 MsaT038456.1:intron
AAGTTTCGAGCTTTGCATCT+GGG 0.499309 7:+76780168 None:intergenic
GATTGTCAGATTTCGTGACT+TGG 0.500107 7:+76777286 None:intergenic
TGGTTGCAAAAGTCAATGCC+AGG 0.500246 7:+76777201 None:intergenic
CGTTGATGACTAGAAACAAA+TGG 0.502636 7:-76774212 MsaT038456.1:CDS
AGTGCAAGGAGACACTGTTT+GGG 0.515525 7:-76777238 MsaT038456.1:CDS
ATAGCAACATGGGAAGTTGA+TGG 0.520731 7:-76776819 MsaT038456.1:CDS
GGAGTAATTGATAATTCTAG+TGG 0.523042 7:+76779301 None:intergenic
TCCATTAGTTATGGCAACAA+GGG 0.530233 7:-76776538 MsaT038456.1:CDS
AGCTCGAAACTTTCTTGCAG+TGG 0.538099 7:-76780157 MsaT038456.1:CDS
GACAGTGGAGCGTTTGCGCA+AGG 0.539091 7:-76779182 MsaT038456.1:CDS
ATACCTGCACTTCAAGAAGC+TGG 0.540029 7:+76775646 None:intergenic
TTCCATTAGTTATGGCAACA+AGG 0.540060 7:-76776539 MsaT038456.1:CDS
TGACTTTGAATTGCTCAAGA+AGG 0.541013 7:-76774445 MsaT038456.1:CDS
TGAAGAGCATTCTGGAACAG+AGG 0.541888 7:-76774472 MsaT038456.1:CDS
TTGCATGGCTATGGTCCTCA+AGG 0.545540 7:+76775306 None:intergenic
GAAAGAAGATACATGGAGAC+AGG 0.550561 7:+76776774 None:intergenic
ACTCCAAAAGCTGATGAAAA+CGG 0.554851 7:-76777508 MsaT038456.1:intron
ACATGGGAAGTTGATGGGAC+TGG 0.560853 7:-76776813 MsaT038456.1:CDS
TTGAATTCAGGCAAATGGGG+TGG 0.561077 7:-76780008 MsaT038456.1:intron
AAGTGGTTGGAAGCATATCA+AGG 0.561594 7:+76779046 None:intergenic
TAGCAACATGGGAAGTTGAT+GGG 0.562500 7:-76776818 MsaT038456.1:CDS
AATACATAAGAACGAGGCAA+TGG 0.562764 7:+76777562 None:intergenic
AAGAAGGAGATGTAGATGAC+AGG 0.563546 7:-76779225 MsaT038456.1:CDS
TTATGGCAACAAGGGAAATG+AGG 0.564716 7:-76776530 MsaT038456.1:intron
TAAAGCTTGTTGGACCTGAA+GGG 0.565102 7:-76774866 MsaT038456.1:intron
ATAGTATTGATTGCTTCTGA+AGG 0.567549 7:+76775690 None:intergenic
TCAGCAATATGGGAGGTTTG+CGG 0.572266 7:-76774813 MsaT038456.1:CDS
ATTATCAATTACTCCAATGA+GGG 0.574443 7:-76779293 MsaT038456.1:CDS
TTTGTATGAAACTAAAGTGA+AGG 0.575323 7:-76778202 MsaT038456.1:CDS
ATCTGAAGCCAATAGCAACA+TGG 0.576295 7:-76776830 MsaT038456.1:CDS
GTTACCGGAAAGAAGATACA+TGG 0.577935 7:+76776767 None:intergenic
AATGATGTTGTTATTGACAG+TGG 0.579816 7:-76779197 MsaT038456.1:CDS
TGTGATAAAGATGTTTCTGA+TGG 0.581741 7:-76779929 MsaT038456.1:intron
GAGGAACTTCAAGAGCTAAG+AGG 0.585300 7:-76778997 MsaT038456.1:CDS
TACACTTTGGTTTAGTGACG+AGG 0.587689 7:-76779016 MsaT038456.1:CDS
GAAAAGCTCATCCTCTTGCA+TGG 0.596233 7:+76775291 None:intergenic
GTTTGCAACTATAGTTGGAG+TGG 0.596685 7:-76775388 MsaT038456.1:CDS
AAAGCTTGTTGGACCTGAAG+GGG 0.597163 7:-76774865 MsaT038456.1:intron
AAACCTCCCATATTGCTGAC+TGG 0.603393 7:+76774817 None:intergenic
TCTGAAGCCAATAGCAACAT+GGG 0.609278 7:-76776829 MsaT038456.1:CDS
AATTATCAATTACTCCAATG+AGG 0.609295 7:-76779294 MsaT038456.1:CDS
GGTTTCGTCAATGCTTGAAG+AGG 0.612106 7:-76775266 MsaT038456.1:intron
ACTACACATAGCACAGTGCA+AGG 0.619661 7:-76777252 MsaT038456.1:CDS
ATTTCTCGATCAATCTGCAA+GGG 0.622050 7:+76776562 None:intergenic
AATTTCTCGATCAATCTGCA+AGG 0.626269 7:+76776561 None:intergenic
GCAATGGAGTGTTCAAAGCA+CGG 0.630375 7:+76777578 None:intergenic
GAGGACCATAGCCATGCAAG+AGG 0.645533 7:-76775302 MsaT038456.1:CDS
CAGAATGGCAAATGACTCAG+AGG 0.653745 7:-76774241 MsaT038456.1:CDS
TAACACAGATGACTACCTCA+TGG 0.656026 7:-76775833 MsaT038456.1:intron
AGAAATTTATGGCTACCTTG+AGG 0.656692 7:-76775321 MsaT038456.1:CDS
GGTTGCAAAAGTCAATGCCA+GGG 0.664466 7:+76777202 None:intergenic
GAAATCTGACAATCTAACCA+AGG 0.669830 7:-76777277 MsaT038456.1:CDS
GCAAATGGGGTGGAGCTACG+AGG 0.694142 7:-76779998 MsaT038456.1:CDS
TCTGCTATTGTATATAGACG+AGG 0.714826 7:-76774189 MsaT038456.1:CDS
TGTCCAGTCAGCAATATGGG+AGG 0.717026 7:-76774820 MsaT038456.1:CDS
TCAGGAAATACATAAGAACG+AGG 0.734559 7:+76777556 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 76774104 76780198 76774104 ID=MsaG038456
Chr7 mRNA 76774104 76780198 76774104 ID=MsaT038456.1;Parent=MsaG038456
Chr7 exon 76774104 76774260 76774104 ID=MsaT038456.1.exon16;Parent=MsaT038456.1
Chr7 CDS 76774104 76774260 76774104 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76774411 76774506 76774411 ID=MsaT038456.1.exon15;Parent=MsaT038456.1
Chr7 CDS 76774411 76774506 76774411 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76774768 76774883 76774768 ID=MsaT038456.1.exon14;Parent=MsaT038456.1
Chr7 CDS 76774768 76774883 76774768 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76775267 76775509 76775267 ID=MsaT038456.1.exon13;Parent=MsaT038456.1
Chr7 CDS 76775267 76775509 76775267 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76775650 76775721 76775650 ID=MsaT038456.1.exon12;Parent=MsaT038456.1
Chr7 CDS 76775650 76775721 76775650 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76775834 76775890 76775834 ID=MsaT038456.1.exon11;Parent=MsaT038456.1
Chr7 CDS 76775834 76775890 76775834 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76776531 76776595 76776531 ID=MsaT038456.1.exon10;Parent=MsaT038456.1
Chr7 CDS 76776531 76776595 76776531 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76776772 76776852 76776772 ID=MsaT038456.1.exon9;Parent=MsaT038456.1
Chr7 CDS 76776772 76776852 76776772 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76777199 76777312 76777199 ID=MsaT038456.1.exon8;Parent=MsaT038456.1
Chr7 CDS 76777199 76777312 76777199 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76777509 76777621 76777509 ID=MsaT038456.1.exon7;Parent=MsaT038456.1
Chr7 CDS 76777509 76777621 76777509 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76777705 76777731 76777705 ID=MsaT038456.1.exon6;Parent=MsaT038456.1
Chr7 CDS 76777705 76777731 76777705 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76778159 76778241 76778159 ID=MsaT038456.1.exon5;Parent=MsaT038456.1
Chr7 CDS 76778159 76778241 76778159 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76778966 76779071 76778966 ID=MsaT038456.1.exon4;Parent=MsaT038456.1
Chr7 CDS 76778966 76779071 76778966 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76779166 76779340 76779166 ID=MsaT038456.1.exon3;Parent=MsaT038456.1
Chr7 CDS 76779166 76779340 76779166 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76779930 76780020 76779930 ID=MsaT038456.1.exon2;Parent=MsaT038456.1
Chr7 CDS 76779930 76780020 76779930 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Chr7 exon 76780151 76780198 76780151 ID=MsaT038456.1.exon1;Parent=MsaT038456.1
Chr7 CDS 76780151 76780198 76780151 ID=cds.MsaT038456.1;Parent=MsaT038456.1
Gene Sequence

>MsaT038456.1

ATGGCGAACCCAGATGCAAAGCTCGAAACTTTCTTGCAGTGGCTACAGGCAAATGGGGTGGAGCTACGAGGCTGCAATATCAAGTACTGTGATTCCAGAAAAGGGTTTGGCATATTTTGTGATAAAGATGTTTCTGATGGGATTCTGTTGGTTGTTCCACTAGAATTATCAATTACTCCAATGAGGGTATTGCAAGATCCTTTTCTAGGACCAGAATGTAGAGCATTGTTTGAAGAAGGAGATGTAGATGACAGGCTCTTAATGATGTTGTTATTGACAGTGGAGCGTTTGCGCAAGGATTCTCTATGGAAACCGTACCTTGATATGCTTCCAACCACTTTTGGAAATACACTTTGGTTTAGTGACGAGGAACTTCAAGAGCTAAGAGGAACAACATTATATCGTGCAACTGAGTTACAGAAGAAAAGCCTGTTGAATTTGTATGAAACTAAAGTGAAGGATAGAGTGAAGAAACTTTTGACTCTTGACGGAGATTCTGAGATAGAGGTGTGCTTTGAAGATTTCCTTTGGGCAAATTCAGTATTTTGGAGCCGTGCTTTGAACACTCCATTGCCTCGTTCTTATGTATTTCCTGAGATGCAAGATGTTCATCAGAGTTGCACTCCAAAAGCTGATGAAAACGGAAGCCAAGTCACGAAATCTGACAATCTAACCAAGGAAACTACACATAGCACAGTGCAAGGAGACACTGTTTGGGTTGAGGGTCTTGTCCCTGGCATTGACTTTTGCAACCATGATCTGAAGCCAATAGCAACATGGGAAGTTGATGGGACTGGCTTAACAACAGGAGTTCCTGTCTCCATGTATCTTCTTTCCGCTGCTCAAAGTCCCTTGCAGATTGATCGAGAAATTTCCATTAGTTATGGCAACAAGGGAAATGAGGAACTTCTATATCTGTATGGTTTCGTCATTGATGGTAACACAGATGACTACCTCATGGTCCATTATCCTTCAGAAGCAATCAATACTATTTCTTTTTCAGAGTCTAAAAGCCAGCTTCTTGAAGTGCAGAAGGCTGAAATGAGATGTCTTTTACCCAAAACTCTGCTGGATAATGGATTTTTTCCATCAGGCACCAAAAACAGTGGAGAAAATAACAAAAGCAACAAAGTTTGCAACTATAGTTGGAGTGGTCAGCGCAAGACTCCATCTTATGTAGATAAGCTTGTTTTTCCTGAGAAATTTATGGCTACCTTGAGGACCATAGCCATGCAAGAGGATGAGCTTTTCAAGGTTTCGTCAATGCTTGAAGAGCTTGTTGGACCTGAAGGGGAGAGACAATTATCAGATATAGATGTCCAGTCAGCAATATGGGAGGTTTGCGGTGATTCTGGAGCTTTACAAGTGCTAGTTGATCTTCTTCATGTCAAGTTAATGGACCTTGAAGAGCATTCTGGAACAGAGGAAAGTGACTTTGAATTGCTCAAGAAGGCCCTTATCATTGATAGCCAGGAAGATAGCAAACAAATGGCAAATGACTCAGAGGAAACAACGTTGATGACTAGAAACAAATGGTCTGCTATTGTATATAGACGAGGTCAAAAGCAGTTAACTCGATTATTCTTGAAAGAAGCAGAACACGCACTGCAATTATCGATGAGCGAAGAGATGAGTGTTCATTGA
Protein sequence

>MsaT038456.1

MANPDAKLETFLQWLQANGVELRGCNIKYCDSRKGFGIFCDKDVSDGILLVVPLELSITPMRVLQDPFLGPECRALFEEGDVDDRLLMMLLLTVERLRKDSLWKPYLDMLPTTFGNTLWFSDEELQELRGTTLYRATELQKKSLLNLYETKVKDRVKKLLTLDGDSEIEVCFEDFLWANSVFWSRALNTPLPRSYVFPEMQDVHQSCTPKADENGSQVTKSDNLTKETTHSTVQGDTVWVEGLVPGIDFCNHDLKPIATWEVDGTGLTTGVPVSMYLLSAAQSPLQIDREISISYGNKGNEELLYLYGFVIDGNTDDYLMVHYPSEAINTISFSESKSQLLEVQKAEMRCLLPKTLLDNGFFPSGTKNSGENNKSNKVCNYSWSGQRKTPSYVDKLVFPEKFMATLRTIAMQEDELFKVSSMLEELVGPEGERQLSDIDVQSAIWEVCGDSGALQVLVDLLHVKLMDLEEHSGTEESDFELLKKALIIDSQEDSKQMANDSEETTLMTRNKWSAIVYRRGQKQLTRLFLKEAEHALQLSMSEEMSVH*