AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026053

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026053 MtrunA17_Chr5g0409461 93.838 357 21 1 1 356 1 357 0.0 694
MsaG026053 MtrunA17_Chr8g0375381 49.351 385 147 9 7 351 5 381 3.46e-123 360
MsaG026053 MtrunA17_Chr1g0164741 53.247 77 31 2 220 291 4 80 5.14e-19 82.0
MsaG026053 MtrunA17_Chr3g0115061 23.098 368 194 15 10 351 13 317 3.59e-13 70.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026053 AT2G19640.2 44.615 390 164 7 8 353 11 392 2.14e-113 335
MsaG026053 AT2G19640.1 48.185 303 141 6 8 302 11 305 2.00e-96 290
MsaG026053 AT2G17900.1 23.810 336 210 14 10 336 18 316 7.25e-13 70.1

Find 65 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAACCTCTCTCTTGAAAT+TGG 0.182162 5:+16168891 MsaT026053.1:CDS
GTAAATTCCATAAGCCTTAA+TGG 0.186663 5:-16169499 None:intergenic
GGGATTCAGTGAGGATTATT+TGG 0.209184 5:-16168969 None:intergenic
GAAAGTAAAGTTTGAAGTTT+TGG 0.250619 5:-16169288 None:intergenic
CTGAAGCAGTTGTGACAATA+AGG 0.255076 5:-16169039 None:intergenic
CAAAGATCCATTAAGGCTTA+TGG 0.268080 5:+16169492 MsaT026053.1:CDS
AAGATCTTGATGGATGATTA+TGG 0.269770 5:+16169708 MsaT026053.1:CDS
TGGATCTTTGAGGACCCTTT+TGG 0.292191 5:-16169479 None:intergenic
CAAACTTTACTTTCACTTCA+TGG 0.305377 5:+16169297 MsaT026053.1:CDS
TGAGATCTTGTGTTGCAATA+AGG 0.317003 5:-16168939 None:intergenic
TTCATGTGGGGTGGACAAAA+AGG 0.320238 5:-16169381 None:intergenic
GGTGCAAGATTGAAGCTAAT+TGG 0.320639 5:+16169751 MsaT026053.1:CDS
TAATCAAACCTGCATGCATT+AGG 0.329362 5:-16169555 None:intergenic
GAAAGTTGACCCTGCTACTT+AGG 0.333316 5:+16169926 MsaT026053.1:CDS
AAACTTAGCATTATCAACTA+TGG 0.347178 5:-16169340 None:intergenic
ATAAGGCCTCTACCTTTGTT+AGG 0.358422 5:-16168922 None:intergenic
GGGTCCTCAAAGATCCATTA+AGG 0.360632 5:+16169485 MsaT026053.1:CDS
ATCTAAGTTTGTTTGTGATA+AGG 0.371788 5:+16169818 MsaT026053.1:CDS
GGAGAATTGTGCAGGTACTA+TGG 0.393146 5:+16169839 MsaT026053.1:CDS
ACTATGGAATCATGATCATT+AGG 0.397254 5:-16169324 None:intergenic
AATCAAACCTGCATGCATTA+GGG 0.410331 5:-16169554 None:intergenic
CCAAATAAAACCTAAGTAGC+AGG 0.410644 5:-16169936 None:intergenic
AATGGAACCTTATACCCAAA+AGG 0.447342 5:+16169464 MsaT026053.1:CDS
GTGAGAGGAATTGAGGGCAT+TGG 0.448917 5:-16169136 None:intergenic
ATTGAAGCTAATTGGAATGA+TGG 0.455273 5:+16169759 MsaT026053.1:CDS
TGCATGCAGGTTTGATTATG+TGG 0.462661 5:+16169560 MsaT026053.1:CDS
TCAATTCCTCTCACTCATCT+TGG 0.489766 5:+16169145 MsaT026053.1:CDS
TAGCAGAATAGAGAAGAAGA+GGG 0.491920 5:-16168990 None:intergenic
AAGATGAGTGAGAGGAATTG+AGG 0.492387 5:-16169143 None:intergenic
AGATGAGTGAGAGGAATTGA+GGG 0.494037 5:-16169142 None:intergenic
ATGGAACCTTATACCCAAAA+GGG 0.516328 5:+16169465 MsaT026053.1:CDS
TGAAGCAGTTGTGACAATAA+GGG 0.517249 5:-16169038 None:intergenic
GTAGCAGAATAGAGAAGAAG+AGG 0.521798 5:-16168991 None:intergenic
GCTCCTCTGCCTCCAAAAGA+TGG 0.525196 5:+16169861 MsaT026053.1:CDS
GTTGTATCCCTAATGCATGC+AGG 0.526565 5:+16169547 MsaT026053.1:CDS
TAAGCCTTAATGGATCTTTG+AGG 0.528933 5:-16169489 None:intergenic
CATGGAAATGTTTGTGAAGG+TGG 0.530274 5:-16169069 None:intergenic
GAAGAAGAGGGGATTCAGTG+AGG 0.537045 5:-16168978 None:intergenic
TTGATTAAGGATGTTGCTGT+TGG 0.542851 5:+16169630 MsaT026053.1:CDS
AGCAGAATAGAGAAGAAGAG+GGG 0.546586 5:-16168989 None:intergenic
AAAAGGTAGTTTGAGCAAGA+AGG 0.551661 5:-16169093 None:intergenic
AAATGTTTGTGAAGGTGGTA+AGG 0.557933 5:-16169064 None:intergenic
TTTCTGATAATGGTGAAGTG+GGG 0.567781 5:-16169197 None:intergenic
GCAACACAAGATCTCAAAGC+TGG 0.580231 5:+16168946 MsaT026053.1:CDS
CACATACCTAACAAAGGTAG+AGG 0.580606 5:+16168916 MsaT026053.1:CDS
GAGGGTGTATGAGAGAAAAG+AGG 0.582689 5:-16169015 None:intergenic
GAAGCAGTTGTGACAATAAG+GGG 0.584478 5:-16169037 None:intergenic
GTGCTCCAATTTCAAGAGAG+AGG 0.586066 5:-16168896 None:intergenic
TGTGATAAGGAGAATTGTGC+AGG 0.587133 5:+16169831 MsaT026053.1:CDS
TAGTTTGAGCAAGAAGGACA+TGG 0.592796 5:-16169087 None:intergenic
TCAGTATTATGTTCATCACC+AGG 0.593180 5:-16169594 None:intergenic
TATGTGGAAAGTGGTGAACC+TGG 0.596809 5:+16169576 MsaT026053.1:CDS
CAAATAAAACCTAAGTAGCA+GGG 0.597406 5:-16169935 None:intergenic
AGGTTTGATTATGTGGAAAG+TGG 0.601381 5:+16169567 MsaT026053.1:CDS
ACATGACCAAGATGAGTGAG+AGG 0.606296 5:-16169151 None:intergenic
AGCTAATTGGAATGATGGAG+AGG 0.615772 5:+16169764 MsaT026053.1:CDS
AGGAATTGAGGGCATTGGAG+AGG 0.625591 5:-16169131 None:intergenic
GCTTGAACTTGAAGTTCACA+AGG 0.648973 5:-16169222 None:intergenic
CAGTTGTGACAATAAGGGGA+GGG 0.650828 5:-16169033 None:intergenic
GCAGTTGTGACAATAAGGGG+AGG 0.655954 5:-16169034 None:intergenic
GGACATGGAAATGTTTGTGA+AGG 0.669839 5:-16169072 None:intergenic
TTGGAGCACATACCTAACAA+AGG 0.675712 5:+16168910 MsaT026053.1:CDS
TTAGATAAGAAAATCACATG+TGG 0.682821 5:-16169801 None:intergenic
ATGCATTAGGGATACAACAA+TGG 0.688941 5:-16169542 None:intergenic
TTAATAAGGATTACTCAACA+AGG 0.716109 5:+16169682 MsaT026053.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 16168877 16169947 16168877 ID=MsaG026053
Chr5 mRNA 16168877 16169947 16168877 ID=MsaT026053.1;Parent=MsaG026053
Chr5 exon 16168877 16169947 16168877 ID=MsaT026053.1.exon1;Parent=MsaT026053.1
Chr5 CDS 16168877 16169947 16168877 ID=cds.MsaT026053.1;Parent=MsaT026053.1
Gene Sequence

>MsaT026053.1

ATGGCTGCTCAAACTTCAACCTCTCTCTTGAAATTGGAGCACATACCTAACAAAGGTAGAGGCCTTATTGCAACACAAGATCTCAAAGCTGGCCAAATAATCCTCACTGAATCCCCTCTTCTTCTCTATTCTGCTACACCTCTTTTCTCTCATACACCCTCCCCTTATTGTCACAACTGCTTCAGAACCTTACCACCTTCACAAACATTTCCATGTCCTTCTTGCTCAAACTACCTTTTCTGCAGCCAAAAATGCCTCTCCAATGCCCTCAATTCCTCTCACTCATCTTGGTCATGTCAAACACTCTCTCATCTTCAAAACCCCACTTCACCATTATCAGAAAAACCTTGTGAACTTCAAGTTCAAGCTCGTTTGATTGTTGCTGCTTACAATCTTGCTATTCACACCCCTCCAAAACTTCAAACTTTACTTTCACTTCATGGTAGTCCTAATGATCATGATTCCATAGTTGATAATGCTAAGTTTATTCATGCTCTTATCTCACCTTTTTGTCCACCCCACATGAATTTTTCAGCTGAACTAGCTGCTAAAGTCATTGCTAAAGAAAGATTAAACTCTTTTTGCTTAATGGAACCTTATACCCAAAAGGGTCCTCAAAGATCCATTAAGGCTTATGGAATTTACCAAAAAGCTACTTTTTTTAACCATTGTTGTATCCCTAATGCATGCAGGTTTGATTATGTGGAAAGTGGTGAACCTGGTGATGAACATAATACTGATATTGTTTTTAGGTTGATTAAGGATGTTGCTGTTGGAAGTGAGATTTGTATAAGCTATTTTAGGATTAATAAGGATTACTCAACAAGGAAAAAGATCTTGATGGATGATTATGGTTTTGCTTGTGAATGTGATAGGTGCAAGATTGAAGCTAATTGGAATGATGGAGAGGACAACAGTGATCTGCCACATGTGATTTTCTTATCTAAGTTTGTTTGTGATAAGGAGAATTGTGCAGGTACTATGGCTCCTCTGCCTCCAAAAGATGGTGAAAAATCTAATGTTCTTGAGTGTAACTTTTGTGGTAATTTGAAAGTTGACCCTGCTACTTAG
Protein sequence

>MsaT026053.1

MAAQTSTSLLKLEHIPNKGRGLIATQDLKAGQIILTESPLLLYSATPLFSHTPSPYCHNCFRTLPPSQTFPCPSCSNYLFCSQKCLSNALNSSHSSWSCQTLSHLQNPTSPLSEKPCELQVQARLIVAAYNLAIHTPPKLQTLLSLHGSPNDHDSIVDNAKFIHALISPFCPPHMNFSAELAAKVIAKERLNSFCLMEPYTQKGPQRSIKAYGIYQKATFFNHCCIPNACRFDYVESGEPGDEHNTDIVFRLIKDVAVGSEICISYFRINKDYSTRKKILMDDYGFACECDRCKIEANWNDGEDNSDLPHVIFLSKFVCDKENCAGTMAPLPPKDGEKSNVLECNFCGNLKVDPAT*