AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016801


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016801 MtrunA17_Chr3g0132851 96.181 419 16 0 1 419 1 419 0.0 818
MsaG016801 MtrunA17_Chr3g0132851 67.480 246 68 6 323 560 840 1081 5.81e-87 291
MsaG016801 MtrunA17_Chr8g0346141 74.344 343 73 6 1 338 1 333 4.67e-163 468
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016801 AT1G09710.1 43.262 282 144 7 7 286 12 279 2.53e-60 211
MsaG016801 AT1G09710.4 43.262 282 144 7 7 286 12 279 2.53e-60 211
MsaG016801 AT1G09710.2 43.262 282 144 7 7 286 12 279 7.74e-60 210
MsaG016801 AT1G58220.2 41.096 292 153 8 5 293 8 283 2.33e-57 205
MsaG016801 AT1G58220.1 41.096 292 153 8 5 293 8 283 3.16e-57 206
MsaG016801 AT1G09710.5 43.511 262 132 7 27 286 3 250 1.43e-54 194
MsaG016801 AT1G09710.3 43.511 262 132 7 27 286 3 250 1.43e-54 194

Find 125 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACTGTGTTGACGGTGTTTC+AGG 0.179751 3:+102349441 MsaT016801.1:CDS
TCCTCTTTCACATTCTCTTT+TGG 0.232674 3:-102355694 None:intergenic
TGTGTTGCACTTCTCTTAAT+AGG 0.272964 3:-102351955 None:intergenic
AAACCTGCCATTGTTCATTC+TGG 0.279281 3:+102353716 MsaT016801.1:CDS
AGCCTCAATTGTTGCGCTAC+TGG 0.294219 3:-102351641 None:intergenic
AGAAATGGGGTGAAGGGAAT+TGG 0.300076 3:+102351905 MsaT016801.1:CDS
GCTTCTTGATCGAAATCTTC+GGG 0.321304 3:-102349592 None:intergenic
TGACGGCATTCATCTTGTTT+TGG 0.324422 3:-102356018 None:intergenic
TGGAAATGACAATTTGAATA+AGG 0.324890 3:+102355909 MsaT016801.1:CDS
TCCATTCTCAGTGGCCTTGT+TGG 0.330321 3:-102355890 None:intergenic
GCCTCAATTGTTGCGCTACT+GGG 0.330390 3:-102351640 None:intergenic
GTCTGTCTCGGAACAGTAAC+TGG 0.336337 3:-102351757 None:intergenic
ACAAAGACACCCATTTCTTC+TGG 0.340474 3:+102353839 MsaT016801.1:CDS
ACGGGAAAATTTACAGTCAT+TGG 0.342085 3:-102351664 None:intergenic
TTCGCAGCCCTCTATCTTGA+TGG 0.342268 3:+102351714 MsaT016801.1:CDS
CCATTCTCAGTGGCCTTGTT+GGG 0.343883 3:-102355889 None:intergenic
AAATGCTGCGCCACAATTGA+TGG 0.346361 3:+102353766 MsaT016801.1:CDS
GCACATTTGAACGAATCTTT+TGG 0.357889 3:-102353868 None:intergenic
TTGGTGCAAACCAGAAGAAA+TGG 0.364583 3:-102353849 None:intergenic
CATGCCGAGTGAGAAAGTTT+TGG 0.372354 3:+102355795 MsaT016801.1:CDS
AGATGAATGCCGTCAAGGTT+TGG 0.374635 3:+102356026 MsaT016801.1:CDS
CATGTCAAGGGCTAAATTTA+AGG 0.380459 3:-102352680 None:intergenic
GGTAAATAGCAAACTGGATA+AGG 0.388102 3:+102355744 MsaT016801.1:CDS
AGCTTCTTGATCGAAATCTT+CGG 0.391082 3:-102349593 None:intergenic
ATGATTCCAGCTCGCAATCT+AGG 0.394178 3:-102350806 None:intergenic
CCCAACAAGGCCACTGAGAA+TGG 0.403530 3:+102355889 MsaT016801.1:CDS
TACGGGATGCTGTTCAGAAA+TGG 0.406647 3:+102351890 MsaT016801.1:CDS
AAAAGCATGGTCAGAGGAAG+AGG 0.416790 3:+102351858 MsaT016801.1:CDS
TTAGAAACCAAGGTAACAAT+TGG 0.423542 3:+102351808 MsaT016801.1:CDS
GAAATGGGGTGAAGGGAATT+GGG 0.437027 3:+102351906 MsaT016801.1:CDS
GAGCTGGAATCATTACCTTC+TGG 0.440450 3:+102350816 MsaT016801.1:CDS
TTCTGTACCACCTCAACGTC+CGG 0.443726 3:+102353604 MsaT016801.1:CDS
TATCCAGTTTGCTATTTACC+TGG 0.447550 3:-102355741 None:intergenic
TCTTTGAAGTTCGTGATGAA+TGG 0.451319 3:-102351690 None:intergenic
ACAGTGGTCGTGGTGGGTCC+AGG 0.456403 3:-102352610 None:intergenic
TTCCCCTACGAAACCCAAAC+TGG 0.457860 3:+102353643 MsaT016801.1:CDS
TAACAGAACTTGTCTTGTCT+TGG 0.461383 3:-102355948 None:intergenic
AAAGACGGCAGTGCCAATCC+TGG 0.468113 3:+102352592 MsaT016801.1:CDS
ACGGGATGCTGTTCAGAAAT+GGG 0.471647 3:+102351891 MsaT016801.1:CDS
GGTCGTGGTGGGTCCAGGAT+TGG 0.471827 3:-102352605 None:intergenic
TGGTGCAAACCAGAAGAAAT+GGG 0.478072 3:-102353848 None:intergenic
TACCTTGGTTTCTAAAGCAT+CGG 0.478903 3:-102351800 None:intergenic
CCTCGCTCTTCACACCCTAC+AGG 0.484270 3:-102355841 None:intergenic
GTTCGTGATGAATGGCAAAC+GGG 0.485192 3:-102351682 None:intergenic
TACATCTACTACTGAGGGCC+AGG 0.486397 3:+102355723 MsaT016801.1:CDS
GGTACCACCAATTGTTACCT+TGG 0.493291 3:-102351815 None:intergenic
CCATAGCATCTGATATTCTC+TGG 0.495184 3:-102349542 None:intergenic
AGGCCAGTTTGGGTTTCGTA+GGG 0.503490 3:-102353646 None:intergenic
GGCAGTATACTGTGCGTTGG+TGG 0.503805 3:-102352635 None:intergenic
GCTCCTGGAGTGACTGATCC+TGG 0.506415 3:+102352721 MsaT016801.1:CDS
GTGACGAGTTGCCAACTGTT+CGG 0.507694 3:-102352656 None:intergenic
GAGGCCAGTTTGGGTTTCGT+AGG 0.509142 3:-102353647 None:intergenic
GGGCCAGGTAAATAGCAAAC+TGG 0.510531 3:+102355738 MsaT016801.1:CDS
TGACTGATCCATCAAGATAG+AGG 0.511332 3:-102351722 None:intergenic
GAACCACAAGCTTGTTGAGC+CGG 0.513950 3:-102353623 None:intergenic
ACCAAAAGAGAATGTGAAAG+AGG 0.514590 3:+102355693 MsaT016801.1:CDS
AAGTGCAACACAATTGTCTC+AGG 0.517574 3:+102351966 MsaT016801.1:CDS
CTATGGCGTCACTTGGCGTA+TGG 0.518446 3:+102349559 MsaT016801.1:CDS
CCCCAGTAGCGCAACAATTG+AGG 0.519910 3:+102351639 MsaT016801.1:CDS
AGTTCGTGATGAATGGCAAA+CGG 0.522557 3:-102351683 None:intergenic
ACAGTATACTGCCGAACAGT+TGG 0.526770 3:+102352645 MsaT016801.1:CDS
GTGGTACCGCAGCTTCCAAA+AGG 0.530566 3:+102351830 MsaT016801.1:CDS
CCTCAATTGTTGCGCTACTG+GGG 0.535284 3:-102351639 None:intergenic
CCAGAGAATATCAGATGCTA+TGG 0.535838 3:+102349542 MsaT016801.1:CDS
GCTCCAGAATGAACAATGGC+AGG 0.536117 3:-102353719 None:intergenic
GAAACCAAGGTAACAATTGG+TGG 0.536953 3:+102351811 MsaT016801.1:CDS
GTGGTCACAGTGGTCGTGGT+GGG 0.537427 3:-102352616 None:intergenic
TGTTCCAAAACTTTCTCACT+CGG 0.538114 3:-102355799 None:intergenic
AATTGGGCTACCATGGCAAA+AGG 0.539271 3:+102351922 MsaT016801.1:CDS
ACGGCACTTCCAAACCTTGA+CGG 0.540493 3:-102356035 None:intergenic
GCTTGTTGAGCCGGACGTTG+AGG 0.544661 3:-102353614 None:intergenic
TCAGATGCTATGGCGTCACT+TGG 0.551439 3:+102349552 MsaT016801.1:CDS
GGTAGATTCACTTAGTGTGC+GGG 0.552870 3:-102351617 None:intergenic
CCGTTGTGTGATTGTGGCGA+TGG 0.556754 3:-102349325 None:intergenic
TGTTACCTCTGTGAAAGAAG+TGG 0.557752 3:+102355642 MsaT016801.1:CDS
TGAAGGGAATTGGGCTACCA+TGG 0.558056 3:+102351915 MsaT016801.1:CDS
TTGATCGAAATCTTCGGGGA+AGG 0.562915 3:-102349587 None:intergenic
CTGTTCAGAAATGGGGTGAA+GGG 0.567453 3:+102351899 MsaT016801.1:CDS
GCTGTTCAGAAATGGGGTGA+AGG 0.567552 3:+102351898 MsaT016801.1:CDS
GTTGGTGGTCACAGTGGTCG+TGG 0.569297 3:-102352620 None:intergenic
CGATCAAGAAGCTCAACCTA+TGG 0.570939 3:+102349603 MsaT016801.1:CDS
CAGTGCCTCAAAATCCTGTA+GGG 0.572729 3:+102355827 MsaT016801.1:CDS
TTTGTCAAAGTACTGCCAGC+AGG 0.576092 3:-102353821 None:intergenic
TGACGTAGCGACTGTGTTGA+CGG 0.576205 3:+102349432 MsaT016801.1:CDS
AGCTTCTACATCTACTACTG+AGG 0.578242 3:+102355717 MsaT016801.1:CDS
GCATCGGTTGATGATACAGT+TGG 0.580284 3:-102351784 None:intergenic
GTGGCACATACTGTTCCTGC+TGG 0.580631 3:+102353806 MsaT016801.1:CDS
GGTTGCGAAACCATCAATTG+TGG 0.581299 3:-102353776 None:intergenic
ACAGTTGGCAGTGTCTGTCT+CGG 0.581866 3:-102351769 None:intergenic
GGAAGAGGACAATTTGCTAC+GGG 0.583393 3:+102351873 MsaT016801.1:CDS
GAAAAGAAAAGCATGGTCAG+AGG 0.589169 3:+102351852 MsaT016801.1:CDS
AGGAAGAGGACAATTTGCTA+CGG 0.589284 3:+102351872 MsaT016801.1:CDS
GGTGGTCACAGTGGTCGTGG+TGG 0.590582 3:-102352617 None:intergenic
ATCATTACCTTCTGGATGTG+CGG 0.593358 3:+102350824 MsaT016801.1:CDS
GAGACTTGCGCCGCATTACG+AGG 0.594633 3:-102353569 None:intergenic
AAACAAGATGAATGCCGTCA+AGG 0.596474 3:+102356021 MsaT016801.1:CDS
TTGGTGAAGAAAACAACCAC+TGG 0.597524 3:+102349508 MsaT016801.1:CDS
CTCAATTGTTGCGCTACTGG+GGG 0.601848 3:-102351638 None:intergenic
TCAAGTGCAGCCTCGTAATG+CGG 0.601947 3:+102353559 MsaT016801.1:CDS
GACTGATCCATCAAGATAGA+GGG 0.602991 3:-102351721 None:intergenic
GCAGTGCCTCAAAATCCTGT+AGG 0.603491 3:+102355826 MsaT016801.1:CDS
TGGTACAGAACTATGAATTG+TGG 0.604104 3:-102353591 None:intergenic
AGGATACCGTTGTGTGATTG+TGG 0.604321 3:-102349331 None:intergenic
CGTCCGGCTCAACAAGCTTG+TGG 0.608478 3:+102353620 MsaT016801.1:CDS
TGTTGAGCCGGACGTTGAGG+TGG 0.610658 3:-102353611 None:intergenic
TTACCAGGATCAGTCACTCC+AGG 0.611192 3:-102352724 None:intergenic
TTCGGCAGTATACTGTGCGT+TGG 0.613588 3:-102352638 None:intergenic
AACCGATGCTTTAGAAACCA+AGG 0.629910 3:+102351798 MsaT016801.1:CDS
TAGTGACCTAGATTGCGAGC+TGG 0.630707 3:+102350800 MsaT016801.1:CDS
GTAGATTCCGCACATCCAGA+AGG 0.634450 3:-102350831 None:intergenic
AGAGACTTCAGCATGTGTGA+AGG 0.635460 3:+102350857 MsaT016801.1:CDS
CGGGATGCTGTTCAGAAATG+GGG 0.635932 3:+102351892 MsaT016801.1:CDS
GGGTAGATTCACTTAGTGTG+CGG 0.638583 3:-102351618 None:intergenic
CCAAAAGGAAAAGAAAAGCA+TGG 0.641628 3:+102351845 MsaT016801.1:CDS
GCTTCTACATCTACTACTGA+GGG 0.642250 3:+102355718 MsaT016801.1:CDS
GGCCAGTTTGGGTTTCGTAG+GGG 0.653534 3:-102353645 None:intergenic
CCTGTAGGGTGTGAAGAGCG+AGG 0.660534 3:+102355841 MsaT016801.1:CDS
ATTGTCATTTCCATTCTCAG+TGG 0.661180 3:-102355899 None:intergenic
ATAGCAAACTGGATAAGGCG+AGG 0.665777 3:+102355749 MsaT016801.1:CDS
CTTCTTGATCGAAATCTTCG+GGG 0.670212 3:-102349591 None:intergenic
CTGTGCGTTGGTGGTCACAG+TGG 0.686988 3:-102352626 None:intergenic
TCTGGCAGTAGAAATACCAG+TGG 0.714592 3:-102349524 None:intergenic
AGCGCTTTAAGAAAGAAAGA+CGG 0.720749 3:+102352577 MsaT016801.1:CDS
TTGTGCTCCAGAATGAACAA+TGG 0.741917 3:-102353723 None:intergenic
CCATCGCCACAATCACACAA+CGG 0.770367 3:+102349325 MsaT016801.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 102349282 102356059 102349282 ID=MsaG016801
Chr3 mRNA 102349282 102356059 102349282 ID=MsaT016801.1;Parent=MsaG016801
Chr3 exon 102349282 102349346 102349282 ID=MsaT016801.1.exon1;Parent=MsaT016801.1
Chr3 CDS 102349282 102349346 102349282 ID=cds.MsaT016801.1;Parent=MsaT016801.1
Chr3 exon 102349429 102349624 102349429 ID=MsaT016801.1.exon2;Parent=MsaT016801.1
Chr3 CDS 102349429 102349624 102349429 ID=cds.MsaT016801.1;Parent=MsaT016801.1
Chr3 exon 102350792 102350878 102350792 ID=MsaT016801.1.exon3;Parent=MsaT016801.1
Chr3 CDS 102350792 102350878 102350792 ID=cds.MsaT016801.1;Parent=MsaT016801.1
Chr3 exon 102351604 102351987 102351604 ID=MsaT016801.1.exon4;Parent=MsaT016801.1
Chr3 CDS 102351604 102351987 102351604 ID=cds.MsaT016801.1;Parent=MsaT016801.1
Chr3 exon 102352571 102352742 102352571 ID=MsaT016801.1.exon5;Parent=MsaT016801.1
Chr3 CDS 102352571 102352742 102352571 ID=cds.MsaT016801.1;Parent=MsaT016801.1
Chr3 exon 102353534 102353886 102353534 ID=MsaT016801.1.exon6;Parent=MsaT016801.1
Chr3 CDS 102353534 102353886 102353534 ID=cds.MsaT016801.1;Parent=MsaT016801.1
Chr3 exon 102355634 102356059 102355634 ID=MsaT016801.1.exon7;Parent=MsaT016801.1
Chr3 CDS 102355634 102356059 102355634 ID=cds.MsaT016801.1;Parent=MsaT016801.1
Gene Sequence

>MsaT016801.1

ATGCCAGAAAAGAAGTCTAAGAAAGTTACCTTCTCTGAAAACGCCATCGCCACAATCACACAACGGTATGACGTAGCGACTGTGTTGACGGTGTTTCAGGAATTATCACATTACGCTGCTGACGAGAATTTTAATTGGAATGAATTGGTGAAGAAAACAACCACTGGTATTTCTACTGCCAGAGAATATCAGATGCTATGGCGTCACTTGGCGTATGGTTATTCCTTCCCCGAAGATTTCGATCAAGAAGCTCAACCTATGGATGATGATAGTGACCTAGATTGCGAGCTGGAATCATTACCTTCTGGATGTGCGGAATCTACATCAGAGACTTCAGCATGTGTGAAGGTGATAATTGCTTCCCGCACACTAAGTGAATCTACCCCCAGTAGCGCAACAATTGAGGCTCCAATGACTGTAAATTTTCCCGTTTGCCATTCATCACGAACTTCAAAGATTTCGCAGCCCTCTATCTTGATGGATCAGTCAAGCATTATGTTTCCAGTTACTGTTCCGAGACAGACACTGCCAACTGTATCATCAACCGATGCTTTAGAAACCAAGGTAACAATTGGTGGTACCGCAGCTTCCAAAAGGAAAAGAAAAGCATGGTCAGAGGAAGAGGACAATTTGCTACGGGATGCTGTTCAGAAATGGGGTGAAGGGAATTGGGCTACCATGGCAAAAGGAGACAGCTTTCCTATTAAGAGAAGTGCAACACAATTGTCTCAGAGGTGGAGCGCTTTAAGAAAGAAAGACGGCAGTGCCAATCCTGGACCCACCACGACCACTGTGACCACCAACGCACAGTATACTGCCGAACAGTTGGCAACTCGTCACTCCTTAAATTTAGCCCTTGACATGCCATTCAAAAAGTTAACTGCTCCTGGAGTGACTGATCCTGGTAGGACATCCACATCAATGAAAAATCAAGTGCAGCCTCGTAATGCGGCGCAAGTCTCCACAATTCATAGTTCTGTACCACCTCAACGTCCGGCTCAACAAGCTTGTGGTTCCCCTACGAAACCCAAACTGGCCTCTGAAAATTCAGTCTCAAAGTGTAATGCAATGTCAGCTCGTGAGTCAAAACCTGCCATTGTTCATTCTGGAGCACAAACACAAACTGTTTCGCGAACAAATGCTGCGCCACAATTGATGGTTTCGCAACCAAAAAATGTGGCACATACTGTTCCTGCTGGCAGTACTTTGACAAAGACACCCATTTCTTCTGGTTTGCACCAAAAGATTCGTTCAAATGATAAACATGTTACCTCTGTGAAAGAAGTGGAAAAAAGACTCGCTGAGCCTGGCTCCACACCAAAAGAGAATGTGAAAGAGGAAGCTTCTACATCTACTACTGAGGGCCAGGTAAATAGCAAACTGGATAAGGCGAGGCTTGATTTAGATAAAGCTAAAAGCATGCCGAGTGAGAAAGTTTTGGAACACAAAGCAGTGCCTCAAAATCCTGTAGGGTGTGAAGAGCGAGGAAGTGTTAAGAGTTCAAATTTTACTCCCAACAAGGCCACTGAGAATGGAAATGACAATTTGAATAAGGAAAGTCAAAATCTAAACCAAGACAAGACAAGTTCTGTTAATGAAAACTCTCAGCATCAGAACGCGAAAGAGAAACTCGTAAATTTGCCAAAACAAGATGAATGCCGTCAAGGTTTGGAAGTGCCGTGA

Protein sequence

>MsaT016801.1

MPEKKSKKVTFSENAIATITQRYDVATVLTVFQELSHYAADENFNWNELVKKTTTGISTAREYQMLWRHLAYGYSFPEDFDQEAQPMDDDSDLDCELESLPSGCAESTSETSACVKVIIASRTLSESTPSSATIEAPMTVNFPVCHSSRTSKISQPSILMDQSSIMFPVTVPRQTLPTVSSTDALETKVTIGGTAASKRKRKAWSEEEDNLLRDAVQKWGEGNWATMAKGDSFPIKRSATQLSQRWSALRKKDGSANPGPTTTTVTTNAQYTAEQLATRHSLNLALDMPFKKLTAPGVTDPGRTSTSMKNQVQPRNAAQVSTIHSSVPPQRPAQQACGSPTKPKLASENSVSKCNAMSARESKPAIVHSGAQTQTVSRTNAAPQLMVSQPKNVAHTVPAGSTLTKTPISSGLHQKIRSNDKHVTSVKEVEKRLAEPGSTPKENVKEEASTSTTEGQVNSKLDKARLDLDKAKSMPSEKVLEHKAVPQNPVGCEERGSVKSSNFTPNKATENGNDNLNKESQNLNQDKTSSVNENSQHQNAKEKLVNLPKQDECRQGLEVP*