AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002789

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002789 MtrunA17_Chr1g0177881 90.110 182 16 1 1 180 1 182 1.80e-103 295
MsaG002789 MtrunA17_Chr7g0267111 62.286 175 54 3 1 164 1 174 2.49e-63 194
MsaG002789 MtrunA17_Chr5g0435131 39.024 164 89 3 5 168 7 159 2.18e-26 99.0
MsaG002789 MtrunA17_Chr4g0025901 36.667 180 93 4 1 170 1 169 7.16e-26 97.8
MsaG002789 MtrunA17_Chr4g0025911 37.059 170 92 4 1 166 1 159 1.04e-22 89.7
MsaG002789 MtrunA17_Chr8g0390531 54.167 72 32 1 95 166 254 324 3.36e-19 83.2
MsaG002789 MtrunA17_Chr5g0432531 53.226 62 29 0 100 161 186 247 2.16e-17 77.4
MsaG002789 MtrunA17_Chr4g0013081 44.928 69 38 0 93 161 307 375 6.84e-16 74.3
MsaG002789 MtrunA17_Chr7g0244571 43.478 69 39 0 93 161 274 342 2.33e-14 70.1
MsaG002789 MtrunA17_Chr3g0141471 56.061 66 29 0 100 165 198 263 3.41e-14 68.9
MsaG002789 MtrunA17_Chr8g0379681 48.438 64 33 0 98 161 256 319 8.04e-14 68.2
MsaG002789 MtrunA17_Chr2g0284471 38.961 77 43 1 103 175 250 326 5.43e-13 65.9
MsaG002789 MtrunA17_Chr4g0075391 42.424 66 38 0 102 167 83 148 4.62e-12 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002789 AT3G52525.1 46.061 165 47 4 1 161 1 127 7.62e-38 128
MsaG002789 AT2G36026.1 44.099 161 71 2 8 167 11 153 1.37e-34 120
MsaG002789 AT2G18500.1 54.412 68 31 0 97 164 223 290 1.21e-20 87.4
MsaG002789 AT5G19650.1 52.239 67 32 0 100 166 154 220 1.27e-20 85.5
MsaG002789 AT1G06920.1 39.394 99 50 2 75 173 226 314 5.96e-16 74.3
MsaG002789 AT2G30400.1 51.613 62 30 0 100 161 252 313 2.66e-15 72.8
MsaG002789 AT5G01840.1 53.448 58 27 0 104 161 202 259 3.06e-14 69.3
MsaG002789 AT5G58360.1 31.333 150 74 4 12 161 165 285 4.85e-14 68.9
MsaG002789 AT4G18830.1 47.059 68 36 0 95 162 277 344 4.86e-14 69.3
MsaG002789 AT5G22240.1 43.750 64 36 0 99 162 95 158 5.48e-13 64.7

Find 26 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTCCACAACCAAGGTTTA+TGG 0.203450 1:-47565518 None:intergenic
GTTTATGGAGACAGTGTTTA+AGG 0.204090 1:-47565503 None:intergenic
CCTTAACTCACGTGACTTCT+AGG 0.227420 1:+47566011 MsaT002789.1:CDS
TTGAACTAGAATTGTTATTA+AGG 0.278906 1:-47565624 None:intergenic
AAATCATCTTTGAAAGGATT+TGG 0.279931 1:+47565739 MsaT002789.1:CDS
TTCAATGTTGCAGATGATAT+TGG 0.300853 1:+47565828 MsaT002789.1:CDS
ACAATTCTAGTTCAACCATT+TGG 0.339508 1:+47565632 MsaT002789.1:CDS
TTGAATATGAAACCAAGTTT+TGG 0.387269 1:-47565550 None:intergenic
CGGTGTTGTGTTGGTTGTGC+TGG 0.393381 1:-47565689 None:intergenic
TTGAAAGGATTTGGAAGAGT+TGG 0.393509 1:+47565748 MsaT002789.1:CDS
CCGAATGATGTGTTTGTTCT+CGG 0.398611 1:-47565709 None:intergenic
TCTGTCTTTCTGTTTCCAAA+TGG 0.429210 1:-47565647 None:intergenic
CCTAGAAGTCACGTGAGTTA+AGG 0.446074 1:-47566011 None:intergenic
TTTGGAAGAGTTGGAAATGA+AGG 0.455515 1:+47565757 MsaT002789.1:CDS
CCGAGAACAAACACATCATT+CGG 0.478560 1:+47565709 MsaT002789.1:CDS
GAATGTCGAAAATCAAGATA+AGG 0.484941 1:-47565808 None:intergenic
AATGTCGAAAATCAAGATAA+GGG 0.494536 1:-47565807 None:intergenic
AACACTGTCTCCATAAACCT+TGG 0.532041 1:+47565508 MsaT002789.1:CDS
CTGAATTCGAAGGAACATCA+TGG 0.538840 1:+47565907 MsaT002789.1:CDS
TCAGAGAAATCATCTTTGAA+AGG 0.539145 1:+47565733 MsaT002789.1:CDS
GTTTGTTCTCGGTGTTGTGT+TGG 0.550067 1:-47565698 None:intergenic
ACATGTAGAAGACCAAAACT+TGG 0.562682 1:+47565538 MsaT002789.1:CDS
GTCTCCATAAACCTTGGTTG+TGG 0.580131 1:+47565514 MsaT002789.1:CDS
TTCTACATGTTCCACAACCA+AGG 0.585357 1:-47565525 None:intergenic
TGAATTCGAAGGAACATCAT+GGG 0.610258 1:+47565908 MsaT002789.1:CDS
TGGAAATGAAGGTGTAGCTG+TGG 0.614010 1:+47565768 MsaT002789.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 47565478 47566032 47565478 ID=MsaG002789
Chr1 mRNA 47565478 47566032 47565478 ID=MsaT002789.1;Parent=MsaG002789
Chr1 exon 47565478 47566032 47565478 ID=MsaT002789.1.exon1;Parent=MsaT002789.1
Chr1 CDS 47565478 47566032 47565478 ID=cds.MsaT002789.1;Parent=MsaT002789.1
Gene Sequence

>MsaT002789.1

ATGTCTACCTCCAGAAAAAAACTAACCTTAAACACTGTCTCCATAAACCTTGGTTGTGGAACATGTAGAAGACCAAAACTTGGTTTCATATTCAACACAAAACCAAAACACAAAAACCCCACTTACCAAAACCACAAAAAACATCACCTTAATAACAATTCTAGTTCAACCATTTGGAAACAGAAAGACAGAGACATTACTGAAACTTCAACCAGCACAACCAACACAACACCGAGAACAAACACATCATTCGGCTCAGAGAAATCATCTTTGAAAGGATTTGGAAGAGTTGGAAATGAAGGTGTAGCTGTGGAGAAAGATTCTGATGACCCTTATCTTGATTTTCGACATTCAATGTTGCAGATGATATTGGAGAATGAGATATATTCTAAAGATGATCTTAGAGAGCTTTTGAACTGTTTTCTTCAGCTGAATTCGAAGGAACATCATGGGATTATTGTTAGAGCTTTTACTGAGATTTGGAATGGAGTTTTCTCTGTTAAGTCTGGTTTTTCATCTGGGTTTCACGTTAACCTTAACTCACGTGACTTCTAG
Protein sequence

>MsaT002789.1

MSTSRKKLTLNTVSINLGCGTCRRPKLGFIFNTKPKHKNPTYQNHKKHHLNNNSSSTIWKQKDRDITETSTSTTNTTPRTNTSFGSEKSSLKGFGRVGNEGVAVEKDSDDPYLDFRHSMLQMILENEIYSKDDLRELLNCFLQLNSKEHHGIIVRAFTEIWNGVFSVKSGFSSGFHVNLNSRDF*