AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005179

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005179 MtrunA17_Chr1g0205341 91.266 229 15 3 1 228 1 225 8.41e-130 365
MsaG005179 MtrunA17_Chr1g0185481 47.794 136 49 2 68 182 134 268 8.13e-35 125
MsaG005179 MtrunA17_Chr7g0259991 42.604 169 61 6 34 181 48 201 3.69e-32 116
MsaG005179 MtrunA17_Chr2g0331871 38.356 73 42 1 118 187 208 280 2.15e-12 65.1
MsaG005179 MtrunA17_Chr1g0210351 33.600 125 68 5 55 178 89 199 9.94e-12 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005179 AT1G05420.1 45.299 117 60 2 71 184 107 222 2.93e-24 96.7
MsaG005179 AT1G05420.2 45.299 117 60 2 71 184 123 238 3.57e-24 96.7
MsaG005179 AT2G32100.1 37.241 145 60 2 69 182 94 238 9.48e-22 90.5
MsaG005179 AT4G14860.1 54.545 66 30 0 121 186 111 176 1.10e-17 78.2
MsaG005179 AT1G79960.1 36.170 94 52 1 87 180 175 260 3.88e-12 64.7

Find 67 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAAGGGTTTACAGAGTATTT+TGG 0.228255 1:-78598788 None:intergenic
CTCTTCACACTACCTCTTCT+TGG 0.295616 1:-78598761 None:intergenic
CGTAGAAATAGTCTTCTTCT+TGG 0.335486 1:-78598604 None:intergenic
CTTGGTCGTGGTGGTGGTGG+TGG 0.362617 1:-78598586 None:intergenic
TATCGCCACGGTAGTTTCTC+AGG 0.363292 1:+78599066 MsaT005179.1:CDS
AGCTGTTTAGAGAATAGTTT+TGG 0.372531 1:-78598446 None:intergenic
TGTTAGATGTTACTAATGAT+TGG 0.384737 1:+78598861 MsaT005179.1:CDS
GAGAAACTACCGTGGCGATA+TGG 0.397249 1:-78599063 None:intergenic
TGAGGTTGGGAGAGAATTGT+AGG 0.399313 1:-78598497 None:intergenic
AGGAGACTCTGTGATGGAAT+TGG 0.407788 1:-78598705 None:intergenic
TGGCGTTGGTTATTGAGCTT+TGG 0.408724 1:-78599043 None:intergenic
GTTAGATGTTACTAATGATT+GGG 0.414482 1:+78598862 MsaT005179.1:CDS
GTGGTAGTGTGTTGTGGATG+AGG 0.449355 1:-78598515 None:intergenic
CAAGGTAGAGTGTCGTTAGA+AGG 0.451760 1:-78598725 None:intergenic
TAGTGTGTTGTGGATGAGGT+TGG 0.452668 1:-78598511 None:intergenic
TGTGATGGAATTGGAGCTGC+CGG 0.453476 1:-78598696 None:intergenic
GTGATGGAATTGGAGCTGCC+GGG 0.463677 1:-78598695 None:intergenic
GGAGAATGATGAAGAGGAGG+AGG 0.466907 1:-78598990 None:intergenic
GGGTGAAGGTGGTATTGAAA+TGG 0.466993 1:-78598565 None:intergenic
GAACGGAGGAAATCAACATA+AGG 0.476551 1:-78598806 None:intergenic
CTTCTTGGTCGTGGTGGTGG+TGG 0.481550 1:-78598589 None:intergenic
TGATTTCCTCCGTTCTATGC+AGG 0.483346 1:+78598814 MsaT005179.1:CDS
GTGGTGGTGGTGGGTGAAGG+TGG 0.483521 1:-78598576 None:intergenic
TTATTGAGCTTTGGAGAAGA+TGG 0.486811 1:-78599034 None:intergenic
TTGGTCGTGGTGGTGGTGGT+GGG 0.488030 1:-78598585 None:intergenic
CTTCTTCTTGGTCGTGGTGG+TGG 0.488768 1:-78598592 None:intergenic
TTTGGAGAAGATGGCGGTGG+CGG 0.494974 1:-78599025 None:intergenic
AGTGTGTTGTGGATGAGGTT+GGG 0.497151 1:-78598510 None:intergenic
AATAGTCTTCTTCTTGGTCG+TGG 0.507672 1:-78598598 None:intergenic
TGATGGAATTGGAGCTGCCG+GGG 0.520934 1:-78598694 None:intergenic
AAGAAGAGGTAGTGTGAAGA+GGG 0.521773 1:+78598763 MsaT005179.1:CDS
TGGAAAGTGCAAGGTGATGA+TGG 0.523328 1:-78598545 None:intergenic
AGGTTCTTCTTCTCCTCCCC+CGG 0.527466 1:+78598677 MsaT005179.1:CDS
CACCACGGAGCTTCCACCAC+CGG 0.528976 1:+78598628 MsaT005179.1:CDS
CGGTAGTTTCTCAGGGAAGT+TGG 0.530160 1:+78599074 MsaT005179.1:CDS
GGAGGAGAATGATGAAGAGG+AGG 0.534241 1:-78598993 None:intergenic
AACGGAGGAAATCAACATAA+GGG 0.534785 1:-78598805 None:intergenic
AGAGGAGGAGAATGATGAAG+AGG 0.539046 1:-78598996 None:intergenic
ACAGAAGAAAAGTCCGGTGG+TGG 0.542301 1:-78598641 None:intergenic
TGGCGGTGGCGGAGATGAAG+AGG 0.559989 1:-78599014 None:intergenic
GATGAAGTGGTAGTGTGTTG+TGG 0.564172 1:-78598521 None:intergenic
GAATCATTTCCTGCATAGAA+CGG 0.567536 1:-78598823 None:intergenic
AAGATAAAATATCAACAAGA+AGG 0.574451 1:-78598967 None:intergenic
CAAGAAGAGGTAGTGTGAAG+AGG 0.577676 1:+78598762 MsaT005179.1:CDS
AGCTTTGGAGAAGATGGCGG+TGG 0.579247 1:-78599028 None:intergenic
CTTGGTATCAACGAGTTGCA+AGG 0.582336 1:-78598743 None:intergenic
CTTCTGTCTTCGCGTCTCAG+AGG 0.595550 1:+78598657 MsaT005179.1:CDS
GATGGAATTGGAGCTGCCGG+GGG 0.596484 1:-78598693 None:intergenic
CTACCGTGGCGATATGGCGT+TGG 0.601430 1:-78599057 None:intergenic
AGTCTTCTTCTTGGTCGTGG+TGG 0.610248 1:-78598595 None:intergenic
GAGGTTGGGAGAGAATTGTA+GGG 0.614608 1:-78598496 None:intergenic
AGGTGATGATGGTGATGAAG+TGG 0.616233 1:-78598534 None:intergenic
GCGAAGACAGAAGAAAAGTC+CGG 0.617433 1:-78598647 None:intergenic
ATCGCCACGGTAGTTTCTCA+GGG 0.618065 1:+78599067 MsaT005179.1:CDS
CGGTGGCGGAGATGAAGAGG+AGG 0.626059 1:-78599011 None:intergenic
TTGAGCTTTGGAGAAGATGG+CGG 0.641449 1:-78599031 None:intergenic
ATATACTTGTGAGTATGCGT+AGG 0.648661 1:-78598926 None:intergenic
GTTAGAAGGAGACTCTGTGA+TGG 0.651959 1:-78598711 None:intergenic
AACTCGTTGATACCAAGAAG+AGG 0.656940 1:+78598749 MsaT005179.1:CDS
ATTTGAGCTTGAAGAAACAG+AGG 0.670569 1:-78598472 None:intergenic
GTCCGGTGGTGGAAGCTCCG+TGG 0.684749 1:-78598630 None:intergenic
TCATTTCCTGCATAGAACGG+AGG 0.700476 1:-78598820 None:intergenic
AGACTATTTCTACGACACCA+CGG 0.705726 1:+78598613 MsaT005179.1:CDS
TAACCAACGCCATATCGCCA+CGG 0.709212 1:+78599054 MsaT005179.1:CDS
GTATTGAAATGGAAAGTGCA+AGG 0.712044 1:-78598554 None:intergenic
AAGACAGAAGAAAAGTCCGG+TGG 0.739392 1:-78598644 None:intergenic
ACTTCCCTGAGAAACTACCG+TGG 0.784562 1:-78599071 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 78598443 78599129 78598443 ID=MsaG005179
Chr1 mRNA 78598443 78599129 78598443 ID=MsaT005179.1;Parent=MsaG005179
Chr1 exon 78598443 78599129 78598443 ID=MsaT005179.1.exon1;Parent=MsaT005179.1
Chr1 CDS 78598443 78599129 78598443 ID=cds.MsaT005179.1;Parent=MsaT005179.1
Gene Sequence

>MsaT005179.1

ATGCCAAAACTATTCTCTAAACAGCTACACCTCTGTTTCTTCAAGCTCAAATACCCTACAATTCTCTCCCAACCTCATCCACAACACACTACCACTTCATCACCATCATCACCTTGCACTTTCCATTTCAATACCACCTTCACCCACCACCACCACCACGACCAAGAAGAAGACTATTTCTACGACACCACGGAGCTTCCACCACCGGACTTTTCTTCTGTCTTCGCGTCTCAGAGGTTCTTCTTCTCCTCCCCCGGCAGCTCCAATTCCATCACAGAGTCTCCTTCTAACGACACTCTACCTTGCAACTCGTTGATACCAAGAAGAGGTAGTGTGAAGAGGGTGCCAAAATACTCTGTAAACCCTTATGTTGATTTCCTCCGTTCTATGCAGGAAATGATTCAATCTCAACAACAAGTGTTAGATGTTACTAATGATTGGGATTATCTTCATGAACTTCTCTTATGCTATCTTGCTCTTAATCCTACGCATACTCACAAGTATATTGTTCAAGCTTTCACTCACCTTCTTGTTGATATTTTATCTTCCTCCTCCTCTTCATCATTCTCCTCCTCTTCATCTCCGCCACCGCCATCTTCTCCAAAGCTCAATAACCAACGCCATATCGCCACGGTAGTTTCTCAGGGAAGTTGGTGTAAAAATATTAAATGTCAAGGTTTTAAATAG
Protein sequence

>MsaT005179.1

MPKLFSKQLHLCFFKLKYPTILSQPHPQHTTTSSPSSPCTFHFNTTFTHHHHHDQEEDYFYDTTELPPPDFSSVFASQRFFFSSPGSSNSITESPSNDTLPCNSLIPRRGSVKRVPKYSVNPYVDFLRSMQEMIQSQQQVLDVTNDWDYLHELLLCYLALNPTHTHKYIVQAFTHLLVDILSSSSSSSFSSSSSPPPPSSPKLNNQRHIATVVSQGSWCKNIKCQGFK*