AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039181

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039181 MtrunA17_Chr7g0255491 92.157 255 15 3 12 264 1 252 1.72e-157 439
MsaG039181 MtrunA17_Chr3g0081141 28.767 219 136 7 78 287 98 305 9.03e-15 73.2
MsaG039181 MtrunA17_Chr2g0310101 40.816 98 51 4 78 168 59 156 3.95e-14 70.1
MsaG039181 MtrunA17_Chr7g0239711 32.515 163 87 7 76 228 55 204 1.26e-12 65.9
MsaG039181 MtrunA17_Chr3g0079671 27.074 229 127 7 78 287 98 305 4.53e-12 65.5
MsaG039181 MtrunA17_Chr7g0224221 44.286 70 29 2 78 137 148 217 6.02e-12 65.5
MsaG039181 MtrunA17_Chr5g0396031 40.449 89 35 3 77 157 45 123 6.68e-12 65.5
MsaG039181 MtrunA17_Chr3g0081131 27.660 235 109 8 78 287 98 296 1.06e-11 64.3
MsaG039181 MtrunA17_Chr1g0161901 41.509 106 46 6 11 110 34 129 2.41e-11 62.8
MsaG039181 MtrunA17_Chr1g0149811 37.190 121 70 3 62 182 79 193 9.36e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039181 AT5G25160.1 40.000 105 45 3 78 182 59 145 3.59e-11 62.4

Find 98 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTTGGGATGAATAATTTA+TGG 0.162779 7:-85639643 MsaT039181.1:CDS
TCCCTTGCAACACCACAATT+TGG 0.181385 7:-85639659 MsaT039181.1:CDS
TGAACAATTCCTTGCCTTCT+TGG 0.192209 7:-85639772 MsaT039181.1:CDS
TGGCTTGGTGGTTCATCTTC+TGG 0.227050 7:-85639752 MsaT039181.1:CDS
CGTGACGCAGGAGGTGTATT+TGG 0.248631 7:+85639707 None:intergenic
TCAGAAGATGCCTCAGAAAT+TGG 0.273890 7:+85639533 None:intergenic
CCCACAGTGTTTGATCTTTG+TGG 0.295932 7:+85639590 None:intergenic
CTGTCATCTTCATCTTCAAT+AGG 0.321326 7:+85639467 None:intergenic
TTGGAGAATGGTGAGCATTC+AGG 0.322095 7:-85640094 MsaT039181.1:CDS
CAAGTTCAGTTCCTCCTCAT+TGG 0.324355 7:+85639430 None:intergenic
AATTCCTTGCCTTCTTGGCT+TGG 0.353374 7:-85639767 MsaT039181.1:CDS
CCCTTGCAACACCACAATTT+GGG 0.353563 7:-85639658 MsaT039181.1:CDS
GAGGTTGGTGGTGATGTCTT+TGG 0.357363 7:+85640184 None:intergenic
ATTTGGGATGAATAATTTAT+GGG 0.357825 7:-85639642 MsaT039181.1:CDS
AAGTTCAGTTCCTCCTCATT+GGG 0.363891 7:+85639431 None:intergenic
TCCTTGCCTTCTTGGCTTGG+TGG 0.368207 7:-85639764 MsaT039181.1:CDS
CTCACCATTCTCCAAGGGTT+TGG 0.371444 7:+85640102 None:intergenic
AAGATCAAACACTGTGGGTT+TGG 0.398899 7:-85639585 MsaT039181.1:CDS
GGTTCATCTTCTGGTGGCTA+TGG 0.403832 7:-85639743 MsaT039181.1:CDS
TGTTCACATGGGAACCAATT+GGG 0.426738 7:+85639789 None:intergenic
TTCCCCACTTCTCAAGCGCT+TGG 0.427846 7:-85639992 MsaT039181.1:CDS
GAATATTAGATCGATACCTT+AGG 0.431642 7:+85639888 None:intergenic
GCGCAAAATGATGGAGGATT+CGG 0.431644 7:-85640233 MsaT039181.1:CDS
TTGTTCACATGGGAACCAAT+TGG 0.439864 7:+85639788 None:intergenic
AATTCCTTCACTTGCGGCAC+AGG 0.441324 7:+85640040 None:intergenic
CAATGAGGAGGAACTGAACT+TGG 0.445260 7:-85639429 MsaT039181.1:CDS
TTCACTTGCGGCACAGGTGG+AGG 0.445355 7:+85640046 None:intergenic
GGAGAGCTTGAAAATTGATA+AGG 0.446609 7:+85639857 None:intergenic
GATTTCTTGACCTTGAGGCT+TGG 0.452474 7:-85640145 MsaT039181.1:CDS
GCTCACGCTTATGAGCGTTT+TGG 0.454295 7:+85639963 None:intergenic
TTCTTGACCTTGAGGCTTGG+CGG 0.462476 7:-85640142 MsaT039181.1:CDS
CCCACTTCTCAAGCGCTTGG+AGG 0.464114 7:-85639989 MsaT039181.1:CDS
TCATCTTCTGGTGGCTATGG+AGG 0.469395 7:-85639740 MsaT039181.1:CDS
CCAACCTCTGGATCGGATGC+TGG 0.471452 7:-85640169 MsaT039181.1:CDS
ATTCTCCAAGGGTTTGGAAG+TGG 0.473353 7:+85640108 None:intergenic
GAGAGCTTGAAAATTGATAA+GGG 0.474183 7:+85639858 None:intergenic
AAACCTCAAGCGCAAAATGA+TGG 0.477017 7:-85640242 MsaT039181.1:CDS
CTTGAAAATTGATAAGGGTA+TGG 0.487010 7:+85639863 None:intergenic
TTCGGAGCAAGAGTCGAAAT+CGG 0.492293 7:-85640215 MsaT039181.1:CDS
AATTTCTGAGGCATCTTCTG+AGG 0.495312 7:-85639531 MsaT039181.1:CDS
TCCTTCACTTGCGGCACAGG+TGG 0.495412 7:+85640043 None:intergenic
GTGTTTGATCTTTGTGGAGT+TGG 0.498368 7:+85639596 None:intergenic
AAGACATCACCACCAACCTC+TGG 0.499816 7:-85640181 MsaT039181.1:CDS
TCCCAAATTGTGGTGTTGCA+AGG 0.499889 7:+85639657 None:intergenic
GCTAGCCTGTCCAACCCAAT+TGG 0.500395 7:-85639803 MsaT039181.1:CDS
TTCTCCAAGGGTTTGGAAGT+GGG 0.501108 7:+85640109 None:intergenic
AATATTAGATCGATACCTTA+GGG 0.503430 7:+85639889 None:intergenic
CATCTTCTGGTGGCTATGGA+GGG 0.505349 7:-85639739 MsaT039181.1:CDS
GGGAACCAATTGGGTTGGAC+AGG 0.508826 7:+85639798 None:intergenic
ACTTCCAAACCCTTGGAGAA+TGG 0.510882 7:-85640106 MsaT039181.1:CDS
TCCTCCAAGCGCTTGAGAAG+TGG 0.512717 7:+85639988 None:intergenic
GATGAACCACCAAGCCAAGA+AGG 0.518609 7:+85639758 None:intergenic
CACATGGGAACCAATTGGGT+TGG 0.519779 7:+85639793 None:intergenic
GCAAGAGTCGAAATCGGAGA+AGG 0.519914 7:-85640209 MsaT039181.1:CDS
AAATCCCACTTCCAAACCCT+TGG 0.521354 7:-85640113 MsaT039181.1:CDS
GAAGATGCCTCAGAAATTGG+AGG 0.529710 7:+85639536 None:intergenic
CTGGCGATTTCTTGACCTTG+AGG 0.533323 7:-85640150 MsaT039181.1:CDS
TTGACCTTGAGGCTTGGCGG+TGG 0.537816 7:-85640139 MsaT039181.1:CDS
CCTCCAAGCGCTTGAGAAGT+GGG 0.545861 7:+85639989 None:intergenic
TACGGAAATATGAATACCCT+TGG 0.547864 7:+85639828 None:intergenic
ATGAATAATTTATGGGGTGG+AGG 0.548808 7:-85639635 MsaT039181.1:CDS
GGGATGAATAATTTATGGGG+TGG 0.553703 7:-85639638 MsaT039181.1:CDS
CTTGGTGGTTCATCTTCTGG+TGG 0.555595 7:-85639749 MsaT039181.1:CDS
AATGGAAGAACAAAGGAGAG+AGG 0.557192 7:-85639927 MsaT039181.1:CDS
TATGAATACCCTTGGTAGTG+TGG 0.561783 7:+85639836 None:intergenic
CCCAAATTGTGGTGTTGCAA+GGG 0.562024 7:+85639658 None:intergenic
TCCACCTGTGCCGCAAGTGA+AGG 0.562222 7:-85640044 MsaT039181.1:CDS
AAATTATTCATCCCAAATTG+TGG 0.569543 7:+85639647 None:intergenic
TGAATGCTCACCATTCTCCA+AGG 0.576662 7:+85640096 None:intergenic
ACCACCAAGCCAAGAAGGCA+AGG 0.577515 7:+85639763 None:intergenic
ATGTGATCGATTCAGCCCTA+AGG 0.581100 7:-85639904 MsaT039181.1:CDS
CAAGCTCTCCACACTACCAA+GGG 0.581296 7:-85639844 MsaT039181.1:CDS
ATCACCACCAACCTCTGGAT+CGG 0.589780 7:-85640176 MsaT039181.1:CDS
GAATGCTCACCATTCTCCAA+GGG 0.590384 7:+85640097 None:intergenic
CCAGCATCCGATCCAGAGGT+TGG 0.592460 7:+85640169 None:intergenic
CAAGAGAATTCCTTCACTTG+CGG 0.593057 7:+85640034 None:intergenic
TCAAGCTCTCCACACTACCA+AGG 0.596295 7:-85639845 MsaT039181.1:CDS
TTTGGGATGAATAATTTATG+GGG 0.599177 7:-85639641 MsaT039181.1:CDS
TGTGCCACCGCCAAGCCTCA+AGG 0.601323 7:+85640135 None:intergenic
AAGATGCCTCAGAAATTGGA+GGG 0.602431 7:+85639537 None:intergenic
GCATCCGATCCAGAGGTTGG+TGG 0.602933 7:+85640172 None:intergenic
GGCATCACAAATCGTGACGC+AGG 0.604137 7:+85639695 None:intergenic
AAGGCAAGGAATTGTTCACA+TGG 0.612872 7:+85639777 None:intergenic
AGATGAAGATGACAGAAATG+AGG 0.616572 7:-85639459 MsaT039181.1:CDS
GGTTGGACAGGCTAGCACTA+CGG 0.617508 7:+85639810 None:intergenic
ATCGCCAGCATCCGATCCAG+AGG 0.630563 7:+85640165 None:intergenic
CCACAAAGATCAAACACTGT+GGG 0.631128 7:-85639590 MsaT039181.1:CDS
CTCCAAGCGCTTGAGAAGTG+GGG 0.636012 7:+85639990 None:intergenic
TCAAACCCCTCCAATTTCTG+AGG 0.642241 7:-85639543 MsaT039181.1:CDS
ATCACAAATCGTGACGCAGG+AGG 0.651769 7:+85639698 None:intergenic
AGATGCCTCAGAAATTGGAG+GGG 0.652285 7:+85639538 None:intergenic
TGAGGCTAATCCCAATGAGG+AGG 0.655080 7:-85639441 MsaT039181.1:CDS
CCTCAAGCGCAAAATGATGG+AGG 0.656497 7:-85640239 MsaT039181.1:CDS
GCAAGGGATGAATTTGACAA+TGG 0.667223 7:+85639674 None:intergenic
TCTTCAATAGGATCATGAGA+AGG 0.673021 7:+85639479 None:intergenic
AAATGAGGCTAATCCCAATG+AGG 0.702908 7:-85639444 MsaT039181.1:CDS
AGGCAAGGAATTGTTCACAT+GGG 0.705162 7:+85639778 None:intergenic
TCCACAAAGATCAAACACTG+TGG 0.713784 7:-85639591 MsaT039181.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 85639415 85640278 85639415 ID=MsaG039181
Chr7 mRNA 85639415 85640278 85639415 ID=MsaT039181.1;Parent=MsaG039181
Chr7 exon 85639415 85640278 85639415 ID=MsaT039181.1.exon1;Parent=MsaT039181.1
Chr7 CDS 85639415 85640278 85639415 ID=cds.MsaT039181.1;Parent=MsaT039181.1
Gene Sequence

>MsaT039181.1

ATGGCTGAGGACAAAAACCTCAAGCGCAAAATGATGGAGGATTCGGAGCAAGAGTCGAAATCGGAGAAGGAGCCAAAGACATCACCACCAACCTCTGGATCGGATGCTGGCGATTTCTTGACCTTGAGGCTTGGCGGTGGCACAAATCCCACTTCCAAACCCTTGGAGAATGGTGAGCATTCAGGTTCATCTCAAACTGCTAATGTTGAACCTCCACCTGTGCCGCAAGTGAAGGAATTCTCTTGTACTTATTGTGACAAGAAATTCCCCACTTCTCAAGCGCTTGGAGGACACCAAAACGCTCATAAGCGTGAGCGTGTCTTCAAAAAAATGGAAGAACAAAGGAGAGAGGATGTGATCGATTCAGCCCTAAGGTATCGATCTAATATTCTTCCATACCCTTATCAATTTTCAAGCTCTCCACACTACCAAGGGTATTCATATTTCCGTAGTGCTAGCCTGTCCAACCCAATTGGTTCCCATGTGAACAATTCCTTGCCTTCTTGGCTTGGTGGTTCATCTTCTGGTGGCTATGGAGGGATGTATATGCCAAATACACCTCCTGCGTCACGATTTGTGATGCCATTGTCAAATTCATCCCTTGCAACACCACAATTTGGGATGAATAATTTATGGGGTGGAGGTCAAAATGCTGCATTACCAACTCCACAAAGATCAAACACTGTGGGTTTGGCACTTTTAGCTCAAGCTAATCAAACCCCTCCAATTTCTGAGGCATCTTCTGAGGCTGTAGAAAGAAATTTCATTGATCAAATTCCTTCTCATGATCCTATTGAAGATGAAGATGACAGAAATGAGGCTAATCCCAATGAGGAGGAACTGAACTTGGAACTCACCCTTTAA
Protein sequence

>MsaT039181.1

MAEDKNLKRKMMEDSEQESKSEKEPKTSPPTSGSDAGDFLTLRLGGGTNPTSKPLENGEHSGSSQTANVEPPPVPQVKEFSCTYCDKKFPTSQALGGHQNAHKRERVFKKMEEQRREDVIDSALRYRSNILPYPYQFSSSPHYQGYSYFRSASLSNPIGSHVNNSLPSWLGGSSSGGYGGMYMPNTPPASRFVMPLSNSSLATPQFGMNNLWGGGQNAALPTPQRSNTVGLALLAQANQTPPISEASSEAVERNFIDQIPSHDPIEDEDDRNEANPNEEELNLELTL*