AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008356


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008356 MtrunA17_Chr2g0302041 93.301 209 12 1 1 209 1 207 3.34e-141 392
MsaG008356 MtrunA17_Chr4g0069721 59.701 134 46 3 38 168 25 153 3.34e-44 145
MsaG008356 MtrunA17_Chr5g0399851 36.066 122 63 3 57 176 20 128 3.14e-15 70.1
MsaG008356 MtrunA17_Chr2g0301131 32.031 128 64 3 58 168 112 233 6.13e-14 68.6
MsaG008356 MtrunA17_Chr4g0070271 32.231 121 45 3 50 168 91 176 9.39e-13 64.3
MsaG008356 MtrunA17_Chr5g0399881 33.333 114 59 3 58 171 44 140 4.51e-12 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008356 AT5G20900.1 53.448 116 46 4 58 171 57 166 4.91e-31 112
MsaG008356 AT3G43440.1 39.535 129 52 4 57 183 130 234 8.25e-16 73.9
MsaG008356 AT3G43440.1 37.736 106 36 2 56 161 43 118 9.17e-13 65.5
MsaG008356 AT3G43440.2 37.500 128 54 4 56 181 43 146 1.74e-15 71.2
MsaG008356 AT1G74950.1 37.097 124 49 4 59 168 120 228 9.22e-13 65.5
MsaG008356 AT1G19180.2 35.043 117 62 3 54 168 56 160 2.25e-12 63.5
MsaG008356 AT1G19180.1 34.746 118 61 4 54 168 122 226 4.86e-12 63.5
MsaG008356 AT1G19180.3 34.746 118 61 4 54 168 122 226 4.86e-12 63.5
MsaG008356 AT5G13220.1 30.081 123 64 3 46 168 92 192 8.02e-11 59.3

Find 47 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCTTACCATCTTCTATAA+TGG 0.263317 2:+33090796 MsaT008356.1:CDS
TTCCTTCACCTGTTCCTTCA+AGG 0.273672 2:+33091048 MsaT008356.1:CDS
TCCTTCATTGAAACCGAATC+TGG 0.348326 2:-33091502 None:intergenic
TTTAGGTCACTGCCAGCATC+TGG 0.371848 2:+33090745 MsaT008356.1:intron
TGCTGACAATTCGCCAGATT+CGG 0.379407 2:+33091489 MsaT008356.1:CDS
TCTTCTCCTATTGCTGTTGA+TGG 0.379691 2:+33088400 MsaT008356.1:CDS
AGTGAATGTCTGCGTGCTAT+TGG 0.383673 2:-33091284 None:intergenic
TGAGTTGTATTAGCAATCAT+TGG 0.398568 2:-33090775 None:intergenic
AGCTTACCATCTTCTATAAT+GGG 0.398580 2:+33090797 MsaT008356.1:CDS
CTGCAGATAGAACTCTTTGC+AGG 0.418330 2:-33091128 None:intergenic
GCCAGATTCGGTTTCAATGA+AGG 0.420770 2:+33091501 MsaT008356.1:CDS
CTAGCACCATCAACAGCAAT+AGG 0.441302 2:-33088406 None:intergenic
GCTAGCTCCAACATGGTTGA+GGG 0.442261 2:+33088424 MsaT008356.1:CDS
AATGGATGGTGTTACTGTTA+AGG 0.443386 2:+33088348 None:intergenic
ACAGGTGAAGGAACAGGAAC+GGG 0.448799 2:-33091038 None:intergenic
ATTGGATTCGTTCCAGATGC+TGG 0.449796 2:-33090757 None:intergenic
TTCTTCAGAAGCGGCGAGAC+AGG 0.453708 2:+33091315 MsaT008356.1:CDS
GTTGGCTGAAATTCTTCCAT+TGG 0.460471 2:-33091526 None:intergenic
CTTCTTCGTTTCACTAGACT+TGG 0.471119 2:-33091000 None:intergenic
TGCTAGCTCCAACATGGTTG+AGG 0.475742 2:+33088423 MsaT008356.1:CDS
TGATGGAATTCCTGCAGAAA+AGG 0.477638 2:+33090834 MsaT008356.1:CDS
GGGAGTATTTGTATCTATGA+TGG 0.478209 2:+33090817 MsaT008356.1:CDS
GCAGTTCCATGTGGCGAAGA+AGG 0.484372 2:-33091071 None:intergenic
CTGCAAAGAGTTCTATCTGC+AGG 0.484476 2:+33091129 MsaT008356.1:CDS
TCTAGAACAGTAAACTTCTC+TGG 0.487430 2:-33088376 None:intergenic
GAAGGAACAGGTGAAGGAAC+AGG 0.487448 2:-33091044 None:intergenic
TGTGGCGAAGAAGGCCTTGA+AGG 0.491077 2:-33091062 None:intergenic
ATAGAACTCTTTGCAGGAAA+GGG 0.495560 2:-33091122 None:intergenic
TTCAAATGTTTCTTCAGAAG+CGG 0.502165 2:+33091306 MsaT008356.1:CDS
TGATAATATCGCTTCACCTC+AGG 0.506938 2:+33091094 MsaT008356.1:CDS
AATACTCCCATTATAGAAGA+TGG 0.513403 2:-33090803 None:intergenic
GAAGAAGGCCTTGAAGGAAC+AGG 0.524051 2:-33091056 None:intergenic
GCTCAAGATGCAGATATAGT+TGG 0.526009 2:-33091544 None:intergenic
TCAAGGCCTTCTTCGCCACA+TGG 0.540794 2:+33091065 MsaT008356.1:CDS
AGTTCTATCTGCAGGCTGCA+AGG 0.555717 2:+33091137 MsaT008356.1:CDS
GATAGAACTCTTTGCAGGAA+AGG 0.557564 2:-33091123 None:intergenic
CATTGACCCCTCAACCATGT+TGG 0.571586 2:-33088431 None:intergenic
GGCCTTGAAGGAACAGGTGA+AGG 0.574210 2:-33091050 None:intergenic
GGTTTCAATGAAGGAACCAA+TGG 0.581761 2:+33091510 MsaT008356.1:CDS
AACAGGTGAAGGAACAGGAA+CGG 0.583312 2:-33091039 None:intergenic
AACAAAGGTAGCTGACAACA+TGG 0.591184 2:+33091453 MsaT008356.1:CDS
TGATGGTGCTAGCTCCAACA+TGG 0.603125 2:+33088417 MsaT008356.1:CDS
GCAGGAAAGGGAGGTGCCTG+AGG 0.614277 2:-33091110 None:intergenic
GACAACATGGAGAACAACTT+CGG 0.616517 2:+33091466 MsaT008356.1:CDS
GAACTCTTTGCAGGAAAGGG+AGG 0.634573 2:-33091119 None:intergenic
CTAGCTCCAACATGGTTGAG+GGG 0.656060 2:+33088425 MsaT008356.1:CDS
ATATTATCAGCAGTTCCATG+TGG 0.739266 2:-33091080 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 33088349 33091564 33088349 ID=MsaG008356
Chr2 mRNA 33088349 33091564 33088349 ID=MsaT008356.1;Parent=MsaG008356
Chr2 exon 33088349 33088473 33088349 ID=MsaT008356.1.exon1;Parent=MsaT008356.1
Chr2 CDS 33088349 33088473 33088349 ID=cds.MsaT008356.1;Parent=MsaT008356.1
Chr2 exon 33090750 33090855 33090750 ID=MsaT008356.1.exon2;Parent=MsaT008356.1
Chr2 CDS 33090750 33090855 33090750 ID=cds.MsaT008356.1;Parent=MsaT008356.1
Chr2 exon 33090966 33091158 33090966 ID=MsaT008356.1.exon3;Parent=MsaT008356.1
Chr2 CDS 33090966 33091158 33090966 ID=cds.MsaT008356.1;Parent=MsaT008356.1
Chr2 exon 33091279 33091336 33091279 ID=MsaT008356.1.exon4;Parent=MsaT008356.1
Chr2 CDS 33091279 33091336 33091279 ID=cds.MsaT008356.1;Parent=MsaT008356.1
Chr2 exon 33091417 33091564 33091417 ID=MsaT008356.1.exon5;Parent=MsaT008356.1
Chr2 CDS 33091417 33091564 33091417 ID=cds.MsaT008356.1;Parent=MsaT008356.1
Gene Sequence

>MsaT008356.1

ATGGATGGTGTTACTGTTAAGGTTGAGCCAGAGAAGTTTACTGTTCTAGAATCTTCTCCTATTGCTGTTGATGGTGCTAGCTCCAACATGGTTGAGGGGTCAATGATGAATTCTTCAGCAAACAAGTCACTGCCAGCATCTGGAACGAATCCAATGATTGCTAATACAACTCAGCTTACCATCTTCTATAATGGGAGTATTTGTATCTATGATGGAATTCCTGCAGAAAAGGTGCAAGAAATAATGCGCATTGCTGCTGCTGCTGCCAAGTCTAGTGAAACGAAGAAGATTATGAAACAATCTCCCGTTCCTGTTCCTTCACCTGTTCCTTCAAGGCCTTCTTCGCCACATGGAACTGCTGATAATATCGCTTCACCTCAGGCACCTCCCTTTCCTGCAAAGAGTTCTATCTGCAGGCTGCAAGAATTTCCAATAGCACGCAGACATTCACTTCAAATGTTTCTTCAGAAGCGGCGAGACAGGTTGGGTAGTAAAGCTCCCTATCCTTCCTCGCCAAAAACAAAGGTAGCTGACAACATGGAGAACAACTTCGGTGCTGACAATTCGCCAGATTCGGTTTCAATGAAGGAACCAATGGAAGAATTTCAGCCAACTATATCTGCATCTTGA

Protein sequence

>MsaT008356.1

MDGVTVKVEPEKFTVLESSPIAVDGASSNMVEGSMMNSSANKSLPASGTNPMIANTTQLTIFYNGSICIYDGIPAEKVQEIMRIAAAAAKSSETKKIMKQSPVPVPSPVPSRPSSPHGTADNIASPQAPPFPAKSSICRLQEFPIARRHSLQMFLQKRRDRLGSKAPYPSSPKTKVADNMENNFGADNSPDSVSMKEPMEEFQPTISAS*