AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026541

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026541 MtrunA17_Chr5g0414001 89.753 283 29 0 1 283 1 283 0.0 504
MsaG026541 MtrunA17_Chr5g0414031 62.783 309 66 6 141 400 22 330 3.31e-114 337
MsaG026541 MtrunA17_Chr5g0413991 91.954 87 7 0 314 400 20 106 6.94e-52 169
MsaG026541 MtrunA17_Chr7g0227501 77.119 118 26 1 18 134 31 148 4.25e-41 144
MsaG026541 MtrunA17_Chr5g0414011 84.286 70 11 0 331 400 1 70 2.23e-35 124
MsaG026541 MtrunA17_Chr4g0058681 48.421 95 49 0 24 118 28 122 2.46e-23 96.7
MsaG026541 MtrunA17_Chr6g0449621 45.690 116 61 2 19 134 46 159 4.63e-17 79.0
MsaG026541 MtrunA17_Chr1g0196841 36.190 105 67 0 34 138 59 163 4.15e-16 75.9
MsaG026541 MtrunA17_Chr3g0139191 37.374 99 62 0 36 134 35 133 4.65e-16 75.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026541 AT1G24040.3 59.193 223 84 2 173 388 80 302 1.45e-89 273
MsaG026541 AT1G24040.2 59.193 223 84 2 173 388 80 302 1.45e-89 273
MsaG026541 AT1G24040.1 59.193 223 84 2 173 388 80 302 1.45e-89 273
MsaG026541 AT3G01570.1 42.748 131 73 2 13 143 14 142 4.73e-28 109
MsaG026541 AT3G27660.1 50.000 118 58 1 26 143 41 157 6.22e-26 103
MsaG026541 AT3G27660.2 50.000 118 58 1 26 143 41 157 6.22e-26 103
MsaG026541 AT5G40420.1 53.846 104 48 0 31 134 48 151 4.15e-23 96.3
MsaG026541 AT5G51210.1 33.645 107 68 1 26 132 16 119 1.87e-15 73.6
MsaG026541 AT5G07550.2 41.333 75 44 0 36 110 3 77 1.29e-14 69.7
MsaG026541 AT5G07550.1 47.692 65 34 0 46 110 13 77 4.97e-12 62.8
MsaG026541 AT2G25890.2 35.965 114 70 1 25 138 44 154 5.25e-12 64.3
MsaG026541 AT2G25890.1 35.965 114 70 1 25 138 19 129 9.85e-12 63.2
MsaG026541 AT5G07530.2 43.750 80 44 1 32 111 61 139 1.44e-11 66.2
MsaG026541 AT4G25140.1 41.026 78 46 0 36 113 42 119 1.54e-11 63.2
MsaG026541 AT5G07520.1 42.169 83 48 0 46 128 20 102 2.32e-11 63.5
MsaG026541 AT5G07530.1 43.210 81 45 1 32 112 61 140 4.95e-11 64.7
MsaG026541 AT5G07530.3 43.210 81 45 1 32 112 61 140 7.15e-11 64.3

Find 83 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACACCAAATCTGGTTCAATT+TGG 0.203436 5:+23880948 MsaT026541.1:CDS
CTTGCTGGACTCTCACTTCT+TGG 0.240542 5:+23880518 MsaT026541.1:CDS
TTGAACCAGATTTGGTGTTT+TGG 0.259091 5:-23880943 None:intergenic
CTTCAGCCCTGTTCTTATTC+CGG 0.292584 5:+23880583 MsaT026541.1:CDS
CAAGTGCTTGCCGTAATTAC+TGG 0.329735 5:+23880467 MsaT026541.1:CDS
TGACCCAATAGTCTGTTTAC+TGG 0.345329 5:+23880997 MsaT026541.1:CDS
AATCCAAATTGAACCAGATT+TGG 0.346323 5:-23880951 None:intergenic
GTCATACTGCTTGCACTTGC+TGG 0.368227 5:+23880503 MsaT026541.1:CDS
TAATCAAATAATGTTTCATA+AGG 0.370814 5:-23881078 None:intergenic
CCGCATGTGGCGACACTGAT+TGG 0.372849 5:+23881118 MsaT026541.1:CDS
TGCCGTAATTACTGGCCTTC+CGG 0.374423 5:+23880475 MsaT026541.1:CDS
TCTGCCAGTAAACAGACTAT+TGG 0.376040 5:-23881001 None:intergenic
TTCGTCTCTGCAAAGTCAAC+AGG 0.380774 5:-23882199 None:intergenic
TTACCCATCAACAGCGTTAT+GGG 0.383125 5:+23880393 MsaT026541.1:CDS
CAGCACTATCCTTGTTCTCA+TGG 0.384874 5:+23880666 MsaT026541.1:CDS
GCAAGCACTTGAGAGATTAA+TGG 0.390526 5:-23880455 None:intergenic
GAGGAATCGACGAGTGGTTT+TGG 0.392372 5:-23880870 None:intergenic
GTTACCCATCAACAGCGTTA+TGG 0.398636 5:+23880392 MsaT026541.1:CDS
TACTCCCAAAACACCAAATC+TGG 0.406255 5:+23880938 MsaT026541.1:CDS
CCTGTAGAGTCCCTTGAGTC+TGG 0.413634 5:-23880706 None:intergenic
GTGTCGCAGGTTGGTGAGTT+CGG 0.418517 5:-23880900 None:intergenic
TACCGGAAGGCCAGTAATTA+CGG 0.424716 5:-23880477 None:intergenic
CTGCCAGTAAACAGACTATT+GGG 0.436198 5:-23881000 None:intergenic
ATGGTAGCCGGAATAAGAAC+AGG 0.440161 5:-23880590 None:intergenic
TTCGCCTTACATTTATAGCT+TGG 0.446373 5:+23881255 MsaT026541.1:CDS
ATAAATGTAAGGCGAATCCT+TGG 0.447429 5:-23881248 None:intergenic
GGGAGTAGAGGAAGGATTCG+AGG 0.455777 5:-23880922 None:intergenic
CGCATGTGGCGACACTGATT+GGG 0.458513 5:+23881119 MsaT026541.1:CDS
ATTCCCTTCAGGAGGGGCAT+TGG 0.469054 5:+23882026 MsaT026541.1:intron
CAAGTGAGGAACTGATTTCT+CGG 0.471299 5:+23882066 MsaT026541.1:CDS
GTCACTGGCTTGACTGTCGT+TGG 0.471404 5:+23880614 MsaT026541.1:CDS
GGCTGAAGAGGATGAAAAGT+GGG 0.476097 5:-23880568 None:intergenic
CCGTGGATAAATCTCTTAGA+AGG 0.481490 5:+23881278 MsaT026541.1:CDS
AAGAATTGCTGCCATGGTAA+TGG 0.512190 5:-23880804 None:intergenic
ATTCCGGCTACCATTGTCAC+TGG 0.512603 5:+23880599 MsaT026541.1:CDS
CATTGGACGGCATCTTCTAA+AGG 0.513599 5:+23882043 MsaT026541.1:CDS
ACGGCCAAGCTATAAATGTA+AGG 0.524650 5:-23881259 None:intergenic
AATTATATACGCCAGACTCA+AGG 0.525896 5:+23880695 MsaT026541.1:CDS
TGCTTCGCCCACTCCTCCCA+AGG 0.530054 5:+23881231 MsaT026541.1:CDS
GGCGAATCCTTGGGAGGAGT+GGG 0.531199 5:-23881238 None:intergenic
GCAAGCAGTATGACGCCTAC+CGG 0.539106 5:-23880494 None:intergenic
TCTTGGAGCACTCACCGGAC+TGG 0.541295 5:+23880535 MsaT026541.1:CDS
TTACATTTATAGCTTGGCCG+TGG 0.542063 5:+23881261 MsaT026541.1:CDS
GGAAGGATTCGAGGTGTCGC+AGG 0.543515 5:-23880913 None:intergenic
TCTACAGGAGCAACTCGAGT+TGG 0.549751 5:+23880721 MsaT026541.1:CDS
TGGTGAGTTCGGAGTTTGTG+AGG 0.550320 5:-23880889 None:intergenic
AGGCGAATCCTTGGGAGGAG+TGG 0.550564 5:-23881239 None:intergenic
GGTGAAGAAATGCAGTTGGC+TGG 0.557318 5:+23881163 MsaT026541.1:CDS
GAATAAGAACAGGGCTGAAG+AGG 0.558393 5:-23880580 None:intergenic
TCACTTCTTGGAGCACTCAC+CGG 0.562044 5:+23880530 MsaT026541.1:CDS
CCTTCAGGAGGGGCATTGGA+CGG 0.564318 5:+23882030 MsaT026541.1:intron
CCAGACTCAAGGGACTCTAC+AGG 0.567784 5:+23880706 MsaT026541.1:CDS
TTTGAAGGCGTAGTTATGAG+AGG 0.572341 5:-23882245 None:intergenic
TGGGGTTGTTACCACCAGTC+CGG 0.573197 5:-23880549 None:intergenic
AGCACTATCCTTGTTCTCAT+GGG 0.573712 5:+23880667 MsaT026541.1:CDS
TAAATGTAAGGCGAATCCTT+GGG 0.579236 5:-23881247 None:intergenic
ATTCATGACCCATGAGAACA+AGG 0.595417 5:-23880675 None:intergenic
AAGCCAGTGACAATGGTAGC+CGG 0.597616 5:-23880602 None:intergenic
TGGAGCACTCACCGGACTGG+TGG 0.598428 5:+23880538 MsaT026541.1:CDS
GAGTGAAAGAATTGCTGCCA+TGG 0.598782 5:-23880810 None:intergenic
TACTCATAGTCATCGGAACA+TGG 0.601957 5:-23882278 None:intergenic
TACCCATCAACAGCGTTATG+GGG 0.602190 5:+23880394 MsaT026541.1:CDS
ATTATATACGCCAGACTCAA+GGG 0.602385 5:+23880696 MsaT026541.1:CDS
GGGCTGAAGAGGATGAAAAG+TGG 0.604332 5:-23880569 None:intergenic
TTTCTTCAGTTCCATTACCA+TGG 0.610356 5:+23880793 MsaT026541.1:CDS
GACAGTCAAGCCAGTGACAA+TGG 0.613238 5:-23880609 None:intergenic
GCAGTATGACGCCTACCGGA+AGG 0.613464 5:-23880490 None:intergenic
TGATGGTGAAGAAATGCAGT+TGG 0.618188 5:+23881159 MsaT026541.1:CDS
TGTCTTCTACTCATAGTCAT+CGG 0.623600 5:-23882285 None:intergenic
GCGTATGGTCGAGTGGTGGT+CGG 0.626199 5:+23880751 MsaT026541.1:CDS
CCAATCAGTGTCGCCACATG+CGG 0.627529 5:-23881118 None:intergenic
GGATTCGAGGTGTCGCAGGT+TGG 0.627538 5:-23880909 None:intergenic
GTAATTACTGGCCTTCCGGT+AGG 0.629067 5:+23880479 MsaT026541.1:CDS
GTTTGTGAGGAATCGACGAG+TGG 0.641213 5:-23880876 None:intergenic
AACAGCGTATGGTCGAGTGG+TGG 0.642438 5:+23880747 MsaT026541.1:CDS
ACCCATCAACAGCGTTATGG+GGG 0.643029 5:+23880395 MsaT026541.1:CDS
CCTTCTAAGAGATTTATCCA+CGG 0.645724 5:-23881278 None:intergenic
GCATCTTCTAAAGGCAAGTG+AGG 0.653743 5:+23882052 MsaT026541.1:CDS
ATGTAAGGCGAATCCTTGGG+AGG 0.670081 5:-23881244 None:intergenic
AAGAATGTTGATGCCGCATG+TGG 0.673105 5:+23881105 MsaT026541.1:CDS
TGGTCGAGTGGTGGTCGGAG+TGG 0.687667 5:+23880756 MsaT026541.1:CDS
GCTGAAGAGGATGAAAAGTG+GGG 0.707972 5:-23880567 None:intergenic
TGGTAGCCGGAATAAGAACA+GGG 0.710736 5:-23880589 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 23880362 23882301 23880362 ID=MsaG026541
Chr5 mRNA 23880362 23882301 23880362 ID=MsaT026541.1;Parent=MsaG026541
Chr5 exon 23880362 23881299 23880362 ID=MsaT026541.1.exon1;Parent=MsaT026541.1
Chr5 CDS 23880362 23881299 23880362 ID=cds.MsaT026541.1;Parent=MsaT026541.1
Chr5 exon 23882037 23882301 23882037 ID=MsaT026541.1.exon2;Parent=MsaT026541.1
Chr5 CDS 23882037 23882301 23882037 ID=cds.MsaT026541.1;Parent=MsaT026541.1
Gene Sequence

>MsaT026541.1

ATGAAAAATTTGAGCATGTTATCAACAAGTGTTACCCATCAACAGCGTTATGGGGGTGGTGGAGTTACTACTCATGACTCAAAGAAAAGAAGTCCATTAATCTCTCAAGTGCTTGCCGTAATTACTGGCCTTCCGGTAGGCGTCATACTGCTTGCACTTGCTGGACTCTCACTTCTTGGAGCACTCACCGGACTGGTGGTAACAACCCCACTTTTCATCCTCTTCAGCCCTGTTCTTATTCCGGCTACCATTGTCACTGGCTTGACTGTCGTTGGCTTTTTTACGTCGGCAATTTTCGGTTTGACAGCACTATCCTTGTTCTCATGGGTCATGAATTATATACGCCAGACTCAAGGGACTCTACAGGAGCAACTCGAGTTGGAAAAACAGCGTATGGTCGAGTGGTGGTCGGAGTGGTGTAACATGAAAGTTTTCTTCAGTTCCATTACCATGGCAGCAATTCTTTCACTCTCCTCCTTAGTCCCTCAAAATCATTGCTTCAACATCACCAAAACCACTCGTCGATTCCTCACAAACTCCGAACTCACCAACCTGCGACACCTCGAATCCTTCCTCTACTCCCAAAACACCAAATCTGGTTCAATTTGGATTCGTGTAATGAGAGACAACGAAATTGACCCAATAGTCTGTTTACTGGCAGATGCGTTTGCTGAATTGATGTTGTTCGCAAAATGTTATATCAATGTGTTGAGATTCCTTATGAAACATTATTTGATTAAACGAAGAATGTTGATGCCGCATGTGGCGACACTGATTGGGTTTTATAAAGGAGTTATTGATGGTGAAGAAATGCAGTTGGCTGGAACTGTTGAGATTTGTTTTGATAAAAATGGTGCTAATTCTTCTCGTGCTTCGCCCACTCCTCCCAAGGATTCGCCTTACATTTATAGCTTGGCCGTGGATAAATCTCTTAGAAGGAGGGGCATTGGACGGCATCTTCTAAAGGCAAGTGAGGAACTGATTTCTCGGATGAGTTCATCAAGAGAAGTTTACTTGCATTGCAGAATGATTGATGAAGCTCCATTTAACATGTATACAAAAGCTGATTACAAAATTGTTACGTCAGATAGTATTTTAGTCCTGTTGACTTTGCAGAGACGAAAATACTTGATGTGCAAGAAACTTCCTCTCATAACTACGCCTTCAAAAACAGATGTGCCATGTTCCGATGACTATGAGTAG
Protein sequence

>MsaT026541.1

MKNLSMLSTSVTHQQRYGGGGVTTHDSKKRSPLISQVLAVITGLPVGVILLALAGLSLLGALTGLVVTTPLFILFSPVLIPATIVTGLTVVGFFTSAIFGLTALSLFSWVMNYIRQTQGTLQEQLELEKQRMVEWWSEWCNMKVFFSSITMAAILSLSSLVPQNHCFNITKTTRRFLTNSELTNLRHLESFLYSQNTKSGSIWIRVMRDNEIDPIVCLLADAFAELMLFAKCYINVLRFLMKHYLIKRRMLMPHVATLIGFYKGVIDGEEMQLAGTVEICFDKNGANSSRASPTPPKDSPYIYSLAVDKSLRRRGIGRHLLKASEELISRMSSSREVYLHCRMIDEAPFNMYTKADYKIVTSDSILVLLTLQRRKYLMCKKLPLITTPSKTDVPCSDDYE*