AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG042545

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042545 MtrunA17_Chr8g0353321 84.437 302 26 2 1 281 1 302 0.0 519
MsaG042545 MtrunA17_Chr1g0164511 63.806 268 78 2 35 283 11 278 6.99e-125 357
MsaG042545 MtrunA17_Chr3g0082161 63.806 268 78 2 35 283 11 278 1.71e-124 356
MsaG042545 MtrunA17_Chr1g0164501 63.380 213 59 2 90 283 1 213 9.99e-93 273
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042545 AT1G72050.1 47.588 311 94 2 35 276 4 314 1.32e-93 280
MsaG042545 AT1G72050.2 47.588 311 94 2 35 276 92 402 7.36e-93 281
MsaG042545 AT1G72050.3 47.588 311 94 2 35 276 107 417 1.05e-92 281
MsaG042545 AT1G72050.4 44.526 274 83 2 35 239 4 277 3.43e-74 230

Find 63 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCCTTTATGTGCGGCTTTC+CGG 0.123980 8:-23915277 MsaT042545.1:CDS
GGCAGCATGGTTTGACTTGA+TGG 0.304339 8:-23916526 MsaT042545.1:CDS
GGTGTTTCATTGTGATTATA+AGG 0.329936 8:-23915715 MsaT042545.1:CDS
ATCCGGAAAGCCGCACATAA+AGG 0.333203 8:+23915275 None:intergenic
TGACTTGATGGATCAGTATC+AGG 0.333991 8:-23916514 MsaT042545.1:CDS
CTTTACATGCTTACAAAGAT+TGG 0.344658 8:+23915320 None:intergenic
CCTTCCCACAGCCAGTTTCC+TGG 0.349542 8:+23916099 None:intergenic
CAACAGTTGAAATGTTGATT+AGG 0.360663 8:-23915032 MsaT042545.1:CDS
AGGATTTAGTGTGTGCTCTA+AGG 0.367395 8:+23915835 None:intergenic
CAGCACGTGTGCCAGGAAAC+TGG 0.372030 8:-23916110 MsaT042545.1:CDS
AACAGTTCAGGTCAAGGAAC+AGG 0.376507 8:-23915077 MsaT042545.1:CDS
CGTGACTGAGGCATCCTTGA+TGG 0.393189 8:+23916469 None:intergenic
CTAATCAACATTTCAACTGT+TGG 0.414915 8:+23915033 None:intergenic
TAAGCAACTCTAGTTGAGTT+GGG 0.420854 8:+23914995 None:intergenic
AAGAAACTGATGAACAGTTC+AGG 0.423144 8:-23915089 MsaT042545.1:CDS
CACCTCCGTAAGCATGAAAC+TGG 0.425204 8:-23915750 MsaT042545.1:CDS
TAAAGGGTTTAACTTGCAAA+TGG 0.426184 8:+23915292 None:intergenic
AACTACCAGTTTCATGCTTA+CGG 0.430793 8:+23915745 None:intergenic
TCCGGAAAGCCGCACATAAA+GGG 0.434905 8:+23915276 None:intergenic
TCGCGGTTGCAATTCTCAAT+AGG 0.443861 8:+23916221 None:intergenic
TCAGAAGCAGCACGTGTGCC+AGG 0.461913 8:-23916117 MsaT042545.1:CDS
TCATCAATAGTACAAATATA+CGG 0.468079 8:+23916320 None:intergenic
AAGTCTCACAGTTCACATAC+TGG 0.472897 8:+23915808 None:intergenic
TTGTACTATTGATGACTGTC+AGG 0.473455 8:-23916312 MsaT042545.1:CDS
ATAAGCAACTCTAGTTGAGT+TGG 0.481173 8:+23914994 None:intergenic
ATGTGAACTGTGAGACTTGT+GGG 0.494220 8:-23915803 MsaT042545.1:CDS
GCAAATCTCATGCCACAATC+CGG 0.501297 8:+23915258 None:intergenic
GGAATTTCTTACACTTGAGA+AGG 0.505878 8:+23915680 None:intergenic
GTAAAACTCTTCATACAGCC+AGG 0.508670 8:+23915870 None:intergenic
GAGGTAGTGTGCTTATACCC+TGG 0.518727 8:-23915888 MsaT042545.1:CDS
GTAGAAGATGACGATTCAAA+TGG 0.524054 8:+23916270 None:intergenic
CAATCTTTGTAAGCATGTAA+AGG 0.534955 8:-23915319 MsaT042545.1:CDS
TCAGGTCAAGGAACAGGGGA+GGG 0.535943 8:-23915071 MsaT042545.1:CDS
ATGTGCGGCTTTCCGGATTG+TGG 0.536821 8:-23915270 MsaT042545.1:CDS
AGTTAAGCTGGAATCAATAG+AGG 0.553788 8:-23915907 MsaT042545.1:CDS
TCAACTAGAGTTGCTTATGA+AGG 0.555541 8:-23914989 MsaT042545.1:CDS
CCTCTTGAGAAGCTCCATCA+AGG 0.568492 8:-23916483 MsaT042545.1:CDS
TTCAGGTCAAGGAACAGGGG+AGG 0.571077 8:-23915072 MsaT042545.1:CDS
ACAGTTCACATACTGGTGGC+AGG 0.578620 8:+23915815 None:intergenic
GTCACGCTCCGTTCAAAACG+AGG 0.580544 8:-23916452 MsaT042545.1:intron
AAGCAACTCTAGTTGAGTTG+GGG 0.587740 8:+23914996 None:intergenic
CCAAAATGCGTGAGGCAGCA+TGG 0.590162 8:-23916539 None:intergenic
CAAGTTAAACCCTTTATGTG+CGG 0.590314 8:-23915285 MsaT042545.1:CDS
ACAGTTCAGGTCAAGGAACA+GGG 0.592102 8:-23915076 MsaT042545.1:CDS
TTGATGGATCAGTATCAGGT+AGG 0.594556 8:-23916510 MsaT042545.1:CDS
GTCATCTTCTACAACACGAA+GGG 0.595414 8:-23916259 MsaT042545.1:CDS
TGATGGATCAGTATCAGGTA+GGG 0.599721 8:-23916509 MsaT042545.1:CDS
CTGATGAACAGTTCAGGTCA+AGG 0.600853 8:-23915083 MsaT042545.1:CDS
AAACATGACAAGACATGTCA+AGG 0.604864 8:-23916183 MsaT042545.1:CDS
CCTTGATGGAGCTTCTCAAG+AGG 0.605639 8:+23916483 None:intergenic
TGTCAAGGAGTTTCATAACA+AGG 0.621209 8:-23916168 MsaT042545.1:CDS
TTCCCTTCAATGAAAAGTCG+CGG 0.629861 8:+23916204 None:intergenic
AGCAACTCTAGTTGAGTTGG+GGG 0.637296 8:+23914997 None:intergenic
TAAAACTCTTCATACAGCCA+GGG 0.647065 8:+23915871 None:intergenic
TGAAACTGGTAGTTCATCAG+AGG 0.652430 8:-23915736 MsaT042545.1:CDS
CTCAGACTCCAAAATGCGTG+AGG 0.655396 8:-23916547 None:intergenic
TCATCTTCTACAACACGAAG+GGG 0.670800 8:-23916258 MsaT042545.1:CDS
CGTCATCTTCTACAACACGA+AGG 0.674405 8:-23916260 MsaT042545.1:CDS
TCAGGCAAGTTACAGAACAA+AGG 0.682389 8:-23916294 MsaT042545.1:CDS
CAGTTCAGGTCAAGGAACAG+GGG 0.683700 8:-23915075 MsaT042545.1:CDS
TACCAGTTTCATGCTTACGG+AGG 0.698676 8:+23915748 None:intergenic
TCTCACAGTTCACATACTGG+TGG 0.715768 8:+23915811 None:intergenic
TATGTGAACTGTGAGACTTG+TGG 0.750818 8:-23915804 MsaT042545.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 23914978 23916556 23914978 ID=MsaG042545
Chr8 mRNA 23914978 23916556 23914978 ID=MsaT042545.1;Parent=MsaG042545
Chr8 exon 23914978 23915121 23914978 ID=MsaT042545.1.exon5;Parent=MsaT042545.1
Chr8 CDS 23914978 23915121 23914978 ID=cds.MsaT042545.1;Parent=MsaT042545.1
Chr8 exon 23915203 23915346 23915203 ID=MsaT042545.1.exon4;Parent=MsaT042545.1
Chr8 CDS 23915203 23915346 23915203 ID=cds.MsaT042545.1;Parent=MsaT042545.1
Chr8 exon 23915692 23915927 23915692 ID=MsaT042545.1.exon3;Parent=MsaT042545.1
Chr8 CDS 23915692 23915927 23915692 ID=cds.MsaT042545.1;Parent=MsaT042545.1
Chr8 exon 23916108 23916343 23916108 ID=MsaT042545.1.exon2;Parent=MsaT042545.1
Chr8 CDS 23916108 23916343 23916108 ID=cds.MsaT042545.1;Parent=MsaT042545.1
Chr8 exon 23916453 23916556 23916453 ID=MsaT042545.1.exon1;Parent=MsaT042545.1
Chr8 CDS 23916453 23916556 23916453 ID=cds.MsaT042545.1;Parent=MsaT042545.1
Gene Sequence

>MsaT042545.1

ATGCGTGAGGCAGCATGGTTTGACTTGATGGATCAGTATCAGGTAGGGAGACCTCTTGAGAAGCTCCATCAAGGATGCCTCAGTCACGCTCCGTTCAAAACGAGGCCGTATATTTGTACTATTGATGACTGTCAGGCAAGTTACAGAACAAAGGACCATTTGAATCGTCATCTTCTACAACACGAAGGGGAGAAATTTAAATGTCCTATTGAGAATTGCAACCGCGACTTTTCATTGAAGGGAAACATGACAAGACATGTCAAGGAGTTTCATAACAAGGATTCTTCTACCTCAATTGATGTTAAAATTCAGAAGCAGCACGTGTGCCAGGAAACTGGCTTTAAGCTGGAATCAATAGAGGTAGTGTGCTTATACCCTGGCTGTATGAAGAGTTTTACTAATCTTCAGTGCCTTAGAGCACACACTAAATCCTGCCACCAGTATGTGAACTGTGAGACTTGTGGGAAAAAGCAACTGCGTAAGAACATTAAAAGACACCTCCGTAAGCATGAAACTGGTAGTTCATCAGAGGTGTTTCATTGTGATTATAAGGATTGTAGCAGCACCTTCTCAAGTAAATCCAATCTTTGTAAGCATGTAAAGGCTGTCCATTTGCAAGTTAAACCCTTTATGTGCGGCTTTCCGGATTGTGGCATGAGATTTGCTTATAAACATGTGAGAGATAACCATGAAAAATCTGGTTCGCATGTTTTTACCCTGGGAGATTTTGAAGAAACTGATGAACAGTTCAGGTCAAGGAACAGGGGAGGGAGAAAGAGAAAGTGTCCAACAGTTGAAATGTTGATTAGGAAGAGAGTTGCTCCCCCAACTCAACTAGAGTTGCTTATGAAGGATGTTGAGTAG
Protein sequence

>MsaT042545.1

MREAAWFDLMDQYQVGRPLEKLHQGCLSHAPFKTRPYICTIDDCQASYRTKDHLNRHLLQHEGEKFKCPIENCNRDFSLKGNMTRHVKEFHNKDSSTSIDVKIQKQHVCQETGFKLESIEVVCLYPGCMKSFTNLQCLRAHTKSCHQYVNCETCGKKQLRKNIKRHLRKHETGSSSEVFHCDYKDCSSTFSSKSNLCKHVKAVHLQVKPFMCGFPDCGMRFAYKHVRDNHEKSGSHVFTLGDFEETDEQFRSRNRGGRKRKCPTVEMLIRKRVAPPTQLELLMKDVE*