AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003495


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003495 MtrunA17_Chr1g0186171 99.251 267 2 0 43 309 148 414 0.0 521
MsaG003495 MtrunA17_Chr1g0186171 100.000 40 0 0 1 40 1 40 5.03e-19 86.7
MsaG003495 MtrunA17_Chr1g0168401 68.401 269 67 7 43 309 163 415 1.98e-115 339
MsaG003495 MtrunA17_Chr8g0387241 39.873 158 69 5 103 255 133 269 2.08e-24 100
MsaG003495 MtrunA17_Chr2g0311591 56.164 73 32 0 192 264 151 223 1.64e-21 92.0
MsaG003495 MtrunA17_Chr5g0397361 54.667 75 34 0 180 254 142 216 4.13e-20 87.8
MsaG003495 MtrunA17_Chr2g0327621 45.918 98 51 1 159 256 105 200 2.29e-19 85.5
MsaG003495 MtrunA17_Chr4g0030421 57.377 61 26 0 196 256 20 80 2.25e-18 79.7
MsaG003495 MtrunA17_Chr1g0147111 36.296 135 69 4 123 256 159 277 7.45e-17 79.0
MsaG003495 MtrunA17_Chr3g0126721 60.000 55 22 0 201 255 220 274 3.65e-15 74.3
MsaG003495 MtrunA17_Chr3g0136701 42.308 78 39 1 182 259 209 280 3.32e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003495 AT1G04500.3 57.358 265 97 8 58 309 116 377 6.45e-91 276
MsaG003495 AT1G04500.4 57.358 265 97 8 58 309 125 386 6.98e-91 276
MsaG003495 AT1G04500.1 57.358 265 97 8 58 309 125 386 6.98e-91 276
MsaG003495 AT2G33350.2 56.159 276 92 11 55 309 142 409 4.57e-82 254
MsaG003495 AT2G33350.4 56.159 276 92 11 55 309 131 398 4.71e-82 253
MsaG003495 AT2G33350.5 56.159 276 92 11 55 309 151 418 1.06e-81 253
MsaG003495 AT2G33350.1 55.235 277 94 11 55 309 142 410 2.58e-80 249
MsaG003495 AT1G04500.2 49.468 188 79 8 58 232 125 309 6.42e-44 154
MsaG003495 AT2G33350.3 48.485 198 74 10 55 232 142 331 3.78e-41 146
MsaG003495 AT5G41380.1 56.250 96 33 3 160 255 173 259 4.47e-24 100
MsaG003495 AT1G63820.1 39.837 123 72 1 155 275 134 256 1.30e-23 98.6
MsaG003495 AT3G12890.1 52.809 89 36 1 202 290 130 212 1.57e-22 94.7
MsaG003495 AT4G27900.1 38.144 97 45 2 160 256 178 259 3.04e-16 77.4
MsaG003495 AT4G27900.2 38.144 97 45 2 160 256 178 259 3.04e-16 77.4
MsaG003495 AT5G59990.1 39.850 133 63 3 159 291 120 235 2.30e-15 74.7
MsaG003495 AT5G53420.2 65.957 47 16 0 209 255 137 183 3.59e-15 72.8
MsaG003495 AT5G53420.5 65.957 47 16 0 209 255 137 183 3.59e-15 72.8
MsaG003495 AT5G53420.4 65.957 47 16 0 209 255 137 183 3.59e-15 72.8
MsaG003495 AT5G53420.1 65.957 47 16 0 209 255 216 262 7.27e-15 73.6
MsaG003495 AT5G24930.1 40.000 70 42 0 191 260 275 344 9.50e-11 62.4

Find 68 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTCCAAGTTTGAGATTTC+TGG 0.139924 1:-57784406 None:intergenic
TGATTCAGTTGTACCTCTTA+TGG 0.188845 1:+57783237 MsaT003495.1:CDS
TTTGCAAAGAATGATGATTT+TGG 0.203362 1:+57784753 MsaT003495.1:CDS
TCAGAATTCTGCAAAGCTTC+TGG 0.225403 1:-57782824 None:intergenic
TCCTGTAAACATTGATATAA+AGG 0.285030 1:-57782743 None:intergenic
GTTTAACCCTCCTGACCTTC+AGG 0.295741 1:+57783537 MsaT003495.1:CDS
TCTCCTTCTTGCAATTATCT+TGG 0.304557 1:+57783340 MsaT003495.1:CDS
TGGTTTGTTTGGTGGAAATA+TGG 0.310217 1:+57783429 MsaT003495.1:CDS
TCCTTTATATCAATGTTTAC+AGG 0.317206 1:+57782742 MsaT003495.1:CDS
TCGAAAATTCGAGCGCTAAG+AGG 0.329398 1:-57782779 None:intergenic
ACTGATAGTTCTGGTTTGTT+TGG 0.336862 1:+57783418 MsaT003495.1:CDS
GCTTTGTCTACTGATAGTTC+TGG 0.348575 1:+57783409 MsaT003495.1:CDS
AAACTTCAGCAAGAAAATTA+AGG 0.349765 1:+57784510 MsaT003495.1:CDS
GATTCAGTTGTACCTCTTAT+GGG 0.354950 1:+57783238 MsaT003495.1:CDS
CTTGGAAGACTCCACTTTCA+AGG 0.364962 1:+57784420 MsaT003495.1:CDS
AAAACAGGTGGTAATGATAA+AGG 0.370742 1:-57783265 None:intergenic
CTTGATTATCAAGGAGATAA+TGG 0.371169 1:+57783481 MsaT003495.1:CDS
GCTACTAGTTGTTGATTCTC+AGG 0.396916 1:-57784355 None:intergenic
AGAGGTACAACTGAATCATT+TGG 0.397376 1:-57783232 None:intergenic
CAGAATTCTGCAAAGCTTCT+GGG 0.401559 1:-57782823 None:intergenic
GGGTTAAACACCCTCTGAAT+AGG 0.414662 1:-57783523 None:intergenic
AATGGAATAGTTGCATTTGA+AGG 0.424110 1:-57785119 None:intergenic
TGCAATTATCTTGGTCCTGC+CGG 0.431147 1:+57783349 MsaT003495.1:CDS
GCAACTATTCCATTCAATCA+TGG 0.437657 1:+57785128 MsaT003495.1:CDS
GATAGTTCTGGTTTGTTTGG+TGG 0.449481 1:+57783421 MsaT003495.1:CDS
TAATTGCAAGAAGGAGAAGA+AGG 0.453970 1:-57783334 None:intergenic
ACAGCATGTTCATCCGTTGA+TGG 0.462537 1:+57783190 MsaT003495.1:CDS
TTATCTTGGTCCTGCCGGTA+TGG 0.463392 1:+57783354 MsaT003495.1:CDS
TGTGAAAGAGGAAGATGATA+TGG 0.463481 1:+57785054 MsaT003495.1:CDS
GACACCAGAAATCTCAAACT+TGG 0.464943 1:+57784402 MsaT003495.1:CDS
CGAAAATTCGAGCGCTAAGA+GGG 0.464964 1:-57782778 None:intergenic
TGAAGAAGAAGATGAAGAAG+AGG 0.466581 1:+57784806 MsaT003495.1:CDS
GAAGACTCCACTTTCAAGGT+TGG 0.473074 1:+57784424 MsaT003495.1:CDS
ACAGTCAATACCTGAAGGTC+AGG 0.480367 1:-57783547 None:intergenic
GATAGCAGACCTCGAGTTAG+AGG 0.482620 1:+57784726 MsaT003495.1:CDS
GAATCAAATCCATGATTGAA+TGG 0.483820 1:-57785137 None:intergenic
CAGCATGTTCATCCGTTGAT+GGG 0.484565 1:+57783191 MsaT003495.1:CDS
GATAAAGGAGCTCCCATAAG+AGG 0.487003 1:-57783250 None:intergenic
GCAGTAGTAAGAGAACCATT+AGG 0.493364 1:-57783388 None:intergenic
ATGGCGGCATACATGCCTAA+TGG 0.504835 1:+57783373 MsaT003495.1:CDS
GTATGCATGCCGCAAAACTC+TGG 0.507026 1:+57784701 MsaT003495.1:intron
TTGTCCTGATCCTATTCAGA+GGG 0.518686 1:+57783513 MsaT003495.1:CDS
AACACCCTCTGAATAGGATC+AGG 0.520235 1:-57783517 None:intergenic
ATGTATGCCGCCATACCGGC+AGG 0.531779 1:-57783364 None:intergenic
GAGAATCAACAACTAGTAGC+TGG 0.540899 1:+57784358 MsaT003495.1:CDS
ACACAAGAACTTGATTATCA+AGG 0.541577 1:+57783472 MsaT003495.1:CDS
GAAGGAGAAGAAGGGTTCAA+AGG 0.541723 1:-57783325 None:intergenic
GAAAACTTTCTGTTGAACAA+AGG 0.552214 1:+57784446 MsaT003495.1:CDS
GGGTTCAAAGGAACATAAGA+AGG 0.558201 1:-57783313 None:intergenic
ACTACAGGTAGTTGTGAAAG+AGG 0.563267 1:+57785042 MsaT003495.1:intron
GATATATTTGCTCATATCAG+TGG 0.567084 1:+57785088 MsaT003495.1:CDS
AGGCATGTATGCCGCCATAC+CGG 0.574531 1:-57783368 None:intergenic
TCTAACTCGAGGTCTGCTAT+CGG 0.575030 1:-57784724 None:intergenic
CAACAACTAGTAGCTGGTGC+TGG 0.575480 1:+57784364 MsaT003495.1:CDS
AATTGCAAGAAGGAGAAGAA+GGG 0.582488 1:-57783333 None:intergenic
TCTTGGTCCTGCCGGTATGG+CGG 0.591145 1:+57783357 MsaT003495.1:CDS
AGAAGCTTTGCAGAATTCTG+AGG 0.591368 1:+57782826 MsaT003495.1:CDS
GTCAATACCTGAAGGTCAGG+AGG 0.601952 1:-57783544 None:intergenic
ATTGTCCTGATCCTATTCAG+AGG 0.615011 1:+57783512 MsaT003495.1:CDS
GGACCAAGATAATTGCAAGA+AGG 0.631874 1:-57783343 None:intergenic
GCAAATCGTCCTCTAACTCG+AGG 0.634840 1:-57784735 None:intergenic
GATATGAGCAAATATATCTG+AGG 0.650959 1:-57785083 None:intergenic
TCAATACCTGAAGGTCAGGA+GGG 0.652626 1:-57783543 None:intergenic
GATACTAATAGAACTGCTAG+TGG 0.652698 1:+57784777 MsaT003495.1:CDS
GTAAGTTGAACATGATGATG+AGG 0.662251 1:-57783169 None:intergenic
ATACTGCGAAAACCCATCAA+CGG 0.666515 1:-57783203 None:intergenic
TGAGATTTCTGGTGTCAGAG+TGG 0.672060 1:-57784395 None:intergenic
TAAAGGAAATGTAAACAACA+TGG 0.694278 1:-57782726 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 57782728 57785156 57782728 ID=MsaG003495
Chr1 mRNA 57782728 57785156 57782728 ID=MsaT003495.1;Parent=MsaG003495
Chr1 exon 57782728 57782847 57782728 ID=MsaT003495.1.exon1;Parent=MsaT003495.1
Chr1 CDS 57782728 57782847 57782728 ID=cds.MsaT003495.1;Parent=MsaT003495.1
Chr1 exon 57783169 57783558 57783169 ID=MsaT003495.1.exon2;Parent=MsaT003495.1
Chr1 CDS 57783169 57783558 57783169 ID=cds.MsaT003495.1;Parent=MsaT003495.1
Chr1 exon 57784346 57784531 57784346 ID=MsaT003495.1.exon3;Parent=MsaT003495.1
Chr1 CDS 57784346 57784531 57784346 ID=cds.MsaT003495.1;Parent=MsaT003495.1
Chr1 exon 57784702 57784827 57784702 ID=MsaT003495.1.exon4;Parent=MsaT003495.1
Chr1 CDS 57784702 57784827 57784702 ID=cds.MsaT003495.1;Parent=MsaT003495.1
Chr1 exon 57785049 57785156 57785049 ID=MsaT003495.1.exon5;Parent=MsaT003495.1
Chr1 CDS 57785049 57785156 57785049 ID=cds.MsaT003495.1;Parent=MsaT003495.1
Gene Sequence

>MsaT003495.1

ATGTTGTTTACATTTCCTTTATATCAATGTTTACAGGATGAAATTTCAAGCCCTCTTAGCGCTCGAATTTTCGAACTTTGTAACACTGAATTATTCCCAGAAGCTTTGCAGAATTCTGAGCCTCATCATCATGTTCAACTTACAGCATGTTCATCCGTTGATGGGTTTTCGCAGTATCATAATCCAAATGATTCAGTTGTACCTCTTATGGGAGCTCCTTTATCATTACCACCTGTTTTTGAAGAGGATTGCATTACTTCTGTACCTTCTTATGTTCCTTTGAACCCTTCTTCTCCTTCTTGCAATTATCTTGGTCCTGCCGGTATGGCGGCATACATGCCTAATGGTTCTCTTACTACTGCTTTGTCTACTGATAGTTCTGGTTTGTTTGGTGGAAATATGGTTTTTGGTTCTGAAATTCAGACACAAGAACTTGATTATCAAGGAGATAATGGTAGAATTTATTGTCCTGATCCTATTCAGAGGGTGTTTAACCCTCCTGACCTTCAGGCACTTAATCCTGAGAATCAACAACTAGTAGCTGGTGCTGGTAGTTCTGCCACTCTGACACCAGAAATCTCAAACTTGGAAGACTCCACTTTCAAGGTTGGAAAACTTTCTGTTGAACAAAGGAAAGAAAAGATTCACAGATACATGAAGAAAAGAAATGAAAGAAACTTCAGCAAGAAAATTAAGTATGCATGCCGCAAAACTCTGGCCGATAGCAGACCTCGAGTTAGAGGACGATTTGCAAAGAATGATGATTTTGGAGATACTAATAGAACTGCTAGTGGCAATCATGAAGAAGAAGATGAAGAAGAGGTAGTTGTGAAAGAGGAAGATGATATGGTTGATTCCTCAGATATATTTGCTCATATCAGTGGAGTGAACTCCTTCAAATGCAACTATTCCATTCAATCATGGATTTGA

Protein sequence

>MsaT003495.1

MLFTFPLYQCLQDEISSPLSARIFELCNTELFPEALQNSEPHHHVQLTACSSVDGFSQYHNPNDSVVPLMGAPLSLPPVFEEDCITSVPSYVPLNPSSPSCNYLGPAGMAAYMPNGSLTTALSTDSSGLFGGNMVFGSEIQTQELDYQGDNGRIYCPDPIQRVFNPPDLQALNPENQQLVAGAGSSATLTPEISNLEDSTFKVGKLSVEQRKEKIHRYMKKRNERNFSKKIKYACRKTLADSRPRVRGRFAKNDDFGDTNRTASGNHEEEDEEEVVVKEEDDMVDSSDIFAHISGVNSFKCNYSIQSWI*