AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039094

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039094 MtrunA17_Chr7g0254251 98.162 272 5 0 1 272 1 272 0.0 554
MsaG039094 MtrunA17_Chr6g0460691 50.515 291 92 7 20 272 24 300 3.33e-64 203
MsaG039094 MtrunA17_Chr7g0223471 59.524 84 34 0 18 101 37 120 5.80e-30 116
MsaG039094 MtrunA17_Chr2g0283141 60.976 82 31 1 11 91 37 118 4.83e-28 111
MsaG039094 MtrunA17_Chr2g0283141 44.776 67 37 0 201 267 341 407 8.31e-15 73.9
MsaG039094 MtrunA17_Chr4g0043891 40.244 82 47 1 27 106 7 88 4.22e-16 75.9
MsaG039094 MtrunA17_Chr8g0392991 44.595 74 40 1 25 97 93 166 9.39e-15 73.2
MsaG039094 MtrunA17_Chr1g0212511 48.387 62 32 0 26 87 83 144 3.14e-14 70.9
MsaG039094 MtrunA17_Chr4g0031341 27.737 137 98 1 28 163 25 161 4.36e-14 70.5
MsaG039094 MtrunA17_Chr3g0144021 47.619 63 33 0 26 88 80 142 1.27e-13 68.2
MsaG039094 MtrunA17_Chr5g0405351 30.719 153 93 4 27 172 29 175 2.22e-12 65.9
MsaG039094 MtrunA17_Chr7g0238431 40.299 67 40 0 24 90 4 70 2.91e-12 64.3
MsaG039094 MtrunA17_Chr5g0436661 33.333 87 58 0 5 91 10 96 3.74e-12 63.5
MsaG039094 MtrunA17_Chr1g0153171 38.636 88 51 1 3 90 68 152 9.26e-12 63.5
MsaG039094 MtrunA17_Chr7g0222981 43.077 65 37 0 25 89 65 129 1.64e-11 61.6
MsaG039094 MtrunA17_Chr4g0046251 42.857 63 36 0 204 266 23 85 5.07e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039094 AT3G03660.1 50.182 275 103 7 12 268 8 266 1.26e-64 203
MsaG039094 AT3G03660.4 49.821 279 106 7 12 272 8 270 8.23e-64 202
MsaG039094 AT3G03660.2 47.351 302 100 8 12 268 8 295 3.04e-61 196
MsaG039094 AT3G03660.3 46.732 306 104 8 12 272 8 299 1.26e-60 195
MsaG039094 AT5G17810.3 46.642 268 111 8 19 268 12 265 4.48e-56 181
MsaG039094 AT5G17810.1 46.642 268 112 8 19 268 12 266 5.20e-56 181
MsaG039094 AT5G17810.2 46.642 268 112 8 19 268 12 266 5.20e-56 181
MsaG039094 AT5G45980.1 30.241 291 163 8 12 266 39 325 7.80e-35 128
MsaG039094 AT2G33880.1 61.644 73 28 0 20 92 47 119 2.33e-26 106
MsaG039094 AT2G33880.1 44.643 56 31 0 211 266 323 378 2.69e-12 66.6
MsaG039094 AT2G33880.2 61.644 73 28 0 20 92 47 119 2.85e-26 106
MsaG039094 AT2G33880.2 46.429 56 30 0 211 266 323 378 2.34e-12 66.6
MsaG039094 AT4G35550.1 46.875 64 34 0 25 88 96 159 3.41e-14 71.2
MsaG039094 AT1G20700.2 42.857 70 40 0 25 94 30 99 2.84e-13 66.2
MsaG039094 AT1G46480.2 38.202 89 46 2 4 90 71 152 5.80e-13 66.2
MsaG039094 AT5G59340.1 36.111 72 46 0 27 98 13 84 5.85e-13 67.4
MsaG039094 AT1G20700.1 42.857 70 40 0 25 94 92 161 6.37e-13 66.6
MsaG039094 AT1G20700.3 42.857 70 40 0 25 94 92 161 6.42e-13 66.6
MsaG039094 AT3G18010.1 40.580 69 40 1 25 92 73 141 1.10e-12 67.8
MsaG039094 AT2G28610.1 40.625 64 38 0 27 90 7 70 3.20e-12 65.1
MsaG039094 AT1G46480.1 36.735 98 53 2 4 99 71 161 5.05e-12 64.7
MsaG039094 AT2G17950.1 42.188 64 36 1 27 89 37 100 1.07e-11 64.3
MsaG039094 AT5G05770.1 33.784 74 49 0 28 101 29 102 1.24e-11 61.2
MsaG039094 AT3G11260.1 39.062 64 39 0 28 91 24 87 1.50e-11 62.4

Find 67 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAGAGTGATAGTTGAAATT+AGG 0.234117 7:-84601016 None:intergenic
TCTTGTTTAAATGATTCTTC+TGG 0.294809 7:+84600854 MsaT039094.1:CDS
TGTTGGGTTGGAGTGTTGTT+GGG 0.318471 7:-84600473 None:intergenic
AGAAAACTTCTTGAGAAATT+CGG 0.326558 7:+84600620 MsaT039094.1:CDS
GTTGGGTTGGAGTGTTGTTG+GGG 0.328214 7:-84600472 None:intergenic
ATGAGAATTTGTTCTGGTTT+TGG 0.333304 7:-84600536 None:intergenic
GAGATCTAGACCGGCGGTTT+TGG 0.333606 7:-84600676 None:intergenic
CAAGTGTGGCCTGCTGCATC+TGG 0.348372 7:-84600712 None:intergenic
AAGATGCCATGTTCATTTGT+AGG 0.357603 7:-84602883 None:intergenic
ATGTTGGGTTGGAGTGTTGT+TGG 0.365481 7:-84600474 None:intergenic
ACATGGTGAAAGCTACTTTC+TGG 0.379822 7:+84602921 MsaT039094.1:CDS
GGGTTGGAGTGTTGTTGGGG+GGG 0.381125 7:-84600469 None:intergenic
CCATGTTCATTTGTAGGAAC+TGG 0.385723 7:-84602877 None:intergenic
TTGGGTTGGAGTGTTGTTGG+GGG 0.394607 7:-84600471 None:intergenic
CTAGACATCAAAACAGTGTT+TGG 0.400410 7:+84602820 MsaT039094.1:CDS
TCATGTGGTGGCGTTCTTAG+TGG 0.412535 7:+84600890 MsaT039094.1:CDS
CCTGCTGCATCTGGCGTTGT+CGG 0.413984 7:-84600703 None:intergenic
TCAAGTATGAGAATTTGTTC+TGG 0.415342 7:-84600542 None:intergenic
CCGACAACGCCAGATGCAGC+AGG 0.426272 7:+84600703 MsaT039094.1:CDS
GGTGTCCACCTTGACCTAAC+CGG 0.426373 7:-84600515 None:intergenic
TGGGTTGGAGTGTTGTTGGG+GGG 0.427678 7:-84600470 None:intergenic
TGGCAACAGTGTTTATCAAT+GGG 0.442136 7:+84602770 MsaT039094.1:CDS
AAGTGCAATTCCTTGTGATA+TGG 0.444028 7:+84600793 MsaT039094.1:CDS
GGAGGTGCTAGTAATATAAC+AGG 0.444664 7:+84602745 MsaT039094.1:CDS
TTGGCAACAGTGTTTATCAA+TGG 0.459800 7:+84602769 MsaT039094.1:CDS
CCGAGAAAACTGAACCGGTT+AGG 0.473633 7:+84600501 MsaT039094.1:CDS
TAGTTGAAATTAGGAGAAAG+AGG 0.501074 7:-84601007 None:intergenic
CACCATGCCACTGTTGAAGA+TGG 0.505097 7:-84600567 None:intergenic
GGTTCTTCCTCTTCATCATG+TGG 0.507710 7:+84600875 MsaT039094.1:CDS
GTGATGTTAGTTCATTCCTC+TGG 0.509716 7:+84602850 MsaT039094.1:CDS
CCTAATTTCAACTATCACTC+TGG 0.510567 7:+84601016 MsaT039094.1:CDS
TGCTAGTAATATAACAGGAT+TGG 0.515623 7:+84602750 MsaT039094.1:CDS
TTCTCGGAACCATGTTGGGT+TGG 0.525597 7:-84600485 None:intergenic
TGGTTCCGAGAAAACTGAAC+CGG 0.529515 7:+84600496 MsaT039094.1:CDS
GTGATGCTAACGTCTTCTAC+TGG 0.530664 7:+84600651 MsaT039094.1:CDS
AGTGGTCAACAAGGCATGGA+TGG 0.541797 7:+84600908 MsaT039094.1:CDS
TGGTATTATTAAGGATATGG+AGG 0.551703 7:+84602727 MsaT039094.1:intron
TGAAATTAGGAGAAAGAGGA+GGG 0.553578 7:-84601003 None:intergenic
CTTGAGAAATTCGGCAACGT+CGG 0.555714 7:+84600629 MsaT039094.1:CDS
ATTTCTTTGCTGATCAAGTG+TGG 0.555910 7:-84600726 None:intergenic
TTGAAATTAGGAGAAAGAGG+AGG 0.567678 7:-84601004 None:intergenic
GCTGCATCTGGCGTTGTCGG+CGG 0.572272 7:-84600700 None:intergenic
TCTTAGTGGTCAACAAGGCA+TGG 0.578357 7:+84600904 MsaT039094.1:CDS
AGAAGAATCATTTAAACAAG+AGG 0.579493 7:-84600852 None:intergenic
TCTTCCTCTTCATCATGTGG+TGG 0.580504 7:+84600878 MsaT039094.1:CDS
ATTGCAACAGAAATTCAAGC+AGG 0.580804 7:+84602793 MsaT039094.1:CDS
AACGCCACCACATGATGAAG+AGG 0.583709 7:-84600882 None:intergenic
GTCGGCGGCGAGATCTAGAC+CGG 0.586191 7:-84600685 None:intergenic
TGATCAGCAAAGAAATCAGA+TGG 0.591537 7:+84600733 MsaT039094.1:CDS
CCAGTTCCTACAAATGAACA+TGG 0.595290 7:+84602877 MsaT039094.1:CDS
AGAATCATTTAAACAAGAGG+AGG 0.602089 7:-84600849 None:intergenic
AGAGGAGGGCACAAAAGTGA+TGG 0.605244 7:-84600989 None:intergenic
AAACTGAACCGGTTAGGTCA+AGG 0.615654 7:+84600507 MsaT039094.1:CDS
AACAACACTCCAACCCAACA+TGG 0.616195 7:+84600476 MsaT039094.1:CDS
GTCCATCTTCAACAGTGGCA+TGG 0.623516 7:+84600565 MsaT039094.1:CDS
TCTACTGGTTCCAAAACCGC+CGG 0.624539 7:+84600666 MsaT039094.1:CDS
CTTGAGTCCATCTTCAACAG+TGG 0.626929 7:+84600560 MsaT039094.1:CDS
GGTTCAAACCAACCCAACCA+TGG 0.628192 7:+84600814 MsaT039094.1:CDS
CCTCAGCAAGTTGTTAACGA+TGG 0.634528 7:+84600767 MsaT039094.1:CDS
CCATCGTTAACAACTTGCTG+AGG 0.647740 7:-84600767 None:intergenic
GGCGTTCTTAGTGGTCAACA+AGG 0.655227 7:+84600899 MsaT039094.1:CDS
TTGCAACAGAAATTCAAGCA+GGG 0.656089 7:+84602794 MsaT039094.1:CDS
TTGGTTTGAACCATATCACA+AGG 0.660599 7:-84600803 None:intergenic
TGTAGGAACTGGCACACCAG+AGG 0.661943 7:-84602866 None:intergenic
TTGATTCAGAGCTTGCAACA+TGG 0.664561 7:+84602904 MsaT039094.1:CDS
CTGAACCGGTTAGGTCAAGG+TGG 0.696695 7:+84600510 MsaT039094.1:CDS
GGCGGCGAGATCTAGACCGG+CGG 0.697708 7:-84600682 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 84600446 84603792 84600446 ID=MsaG039094
Chr7 mRNA 84600446 84603792 84600446 ID=MsaT039094.1;Parent=MsaG039094
Chr7 exon 84600446 84601037 84600446 ID=MsaT039094.1.exon1;Parent=MsaT039094.1
Chr7 CDS 84600446 84601037 84600446 ID=cds.MsaT039094.1;Parent=MsaT039094.1
Chr7 exon 84602740 84602942 84602740 ID=MsaT039094.1.exon2;Parent=MsaT039094.1
Chr7 CDS 84602740 84602942 84602740 ID=cds.MsaT039094.1;Parent=MsaT039094.1
Chr7 exon 84603769 84603792 84603769 ID=MsaT039094.1.exon3;Parent=MsaT039094.1
Chr7 CDS 84603769 84603792 84603769 ID=cds.MsaT039094.1;Parent=MsaT039094.1
Gene Sequence

>MsaT039094.1

ATGGAAGATAAGATGCAACATGACCCCCCCAACAACACTCCAACCCAACATGGTTCCGAGAAAACTGAACCGGTTAGGTCAAGGTGGACACCAAAACCAGAACAAATTCTCATACTTGAGTCCATCTTCAACAGTGGCATGGTGAATCCCCCAAAAGAAGAAACTATCAAAATAAGAAAACTTCTTGAGAAATTCGGCAACGTCGGTGATGCTAACGTCTTCTACTGGTTCCAAAACCGCCGGTCTAGATCTCGCCGCCGACAACGCCAGATGCAGCAGGCCACACTTGATCAGCAAAGAAATCAGATGGCTATGATGCAGCCTCAGCAAGTTGTTAACGATGGTGCAAGTGCAATTCCTTGTGATATGGTTCAAACCAACCCAACCATGGTTTTTGGTGGTTCCTCCTCTTGTTTAAATGATTCTTCTGGTTCTTCCTCTTCATCATGTGGTGGCGTTCTTAGTGGTCAACAAGGCATGGATGGTTTGTTTTCAGTTTCTTCTCAAATGGGTTTTCTTGGAGTTGATCAAACTTTAGCTGCACCATCACTTTTGTGCCCTCCTCTTTCTCCTAATTTCAACTATCACTCTGGATATGGAGGTGCTAGTAATATAACAGGATTGGCAACAGTGTTTATCAATGGGATTGCAACAGAAATTCAAGCAGGGCCACTAGACATCAAAACAGTGTTTGGAGAAGATGTGATGTTAGTTCATTCCTCTGGTGTGCCAGTTCCTACAAATGAACATGGCATCTTGATTCAGAGCTTGCAACATGGTGAAAGCTACTTTCTGGTATCAAAGTCAGCACAAGTTTGA
Protein sequence

>MsaT039094.1

MEDKMQHDPPNNTPTQHGSEKTEPVRSRWTPKPEQILILESIFNSGMVNPPKEETIKIRKLLEKFGNVGDANVFYWFQNRRSRSRRRQRQMQQATLDQQRNQMAMMQPQQVVNDGASAIPCDMVQTNPTMVFGGSSSCLNDSSGSSSSSCGGVLSGQQGMDGLFSVSSQMGFLGVDQTLAAPSLLCPPLSPNFNYHSGYGGASNITGLATVFINGIATEIQAGPLDIKTVFGEDVMLVHSSGVPVPTNEHGILIQSLQHGESYFLVSKSAQV*