AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040188

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040188 MtrunA17_Chr7g0267111 98.485 198 1 1 1 196 1 198 1.53e-145 402
MsaG040188 MtrunA17_Chr1g0177881 56.771 192 68 3 1 188 1 181 1.55e-64 197
MsaG040188 MtrunA17_Chr4g0025901 37.234 188 98 5 1 180 1 176 5.85e-29 106
MsaG040188 MtrunA17_Chr5g0435131 36.782 174 83 5 4 174 6 155 8.31e-26 97.8
MsaG040188 MtrunA17_Chr4g0025911 35.227 176 89 3 1 172 1 155 1.35e-24 95.1
MsaG040188 MtrunA17_Chr8g0390531 47.297 74 39 0 101 174 249 322 1.88e-17 79.0
MsaG040188 MtrunA17_Chr5g0432531 47.826 69 36 0 110 178 186 254 4.29e-17 77.0
MsaG040188 MtrunA17_Chr4g0013081 42.029 69 40 0 103 171 307 375 2.49e-14 70.5
MsaG040188 MtrunA17_Chr7g0244571 40.000 70 42 0 102 171 273 342 6.87e-14 68.9
MsaG040188 MtrunA17_Chr8g0379681 42.647 68 39 0 108 175 256 323 1.72e-12 65.1
MsaG040188 MtrunA17_Chr3g0141471 52.778 72 34 0 110 181 198 269 1.77e-12 64.3
MsaG040188 MtrunA17_Chr2g0284471 40.909 66 39 0 110 175 247 312 2.38e-12 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040188 AT2G36026.1 47.024 168 60 4 8 174 11 150 5.18e-35 122
MsaG040188 AT3G52525.1 78.125 64 14 0 108 171 64 127 6.98e-33 115
MsaG040188 AT2G18500.1 56.923 65 28 0 110 174 226 290 1.13e-20 87.8
MsaG040188 AT5G19650.1 52.381 63 30 0 109 171 153 215 4.66e-18 79.3
MsaG040188 AT5G58360.1 38.462 78 46 1 96 171 208 285 9.20e-14 68.6
MsaG040188 AT2G30400.1 48.387 62 32 0 110 171 252 313 1.43e-13 68.2
MsaG040188 AT1G06920.1 43.077 65 37 0 110 174 243 307 1.75e-13 68.2
MsaG040188 AT5G01840.1 44.118 68 38 0 114 181 202 269 1.36e-12 65.1
MsaG040188 AT4G18830.1 44.118 68 38 0 105 172 277 344 3.16e-12 64.7
MsaG040188 AT5G22240.1 43.077 65 37 0 110 174 96 160 6.98e-12 62.0

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGATCCTTATCTTGATTTC+AGG 0.232091 7:-97615851 MsaT040188.1:CDS
TAAGTGGGGTTCTTGGATTT+TGG 0.239783 7:+97616104 None:intergenic
TTCCATGCTTCAAATGATAT+TGG 0.263152 7:-97615826 MsaT040188.1:CDS
CAAAGGAGAGTAGGTGGTTT+AGG 0.273409 7:-97615915 MsaT040188.1:CDS
TGTTTGTGGTTGTAGTGTTT+GGG 0.298136 7:+97616003 None:intergenic
GTGTTTGTGGTTGTAGTGTT+TGG 0.310441 7:+97616002 None:intergenic
AACAGTTCAAAAGCTCTCTA+AGG 0.371057 7:+97615778 None:intergenic
CTAAACCACCTACTCTCCTT+TGG 0.387710 7:+97615916 None:intergenic
TTAACGTTGACGTGGCTTAC+GGG 0.391307 7:+97615635 None:intergenic
AAATGTGGTGGCAGTGTTTG+TGG 0.395839 7:+97615989 None:intergenic
GTTAACGTTGACGTGGCTTA+CGG 0.405421 7:+97615634 None:intergenic
GGTACGAGATGTATGCAAAC+TGG 0.419878 7:+97615662 None:intergenic
GTAGGTGGTTTAGGAAGAGC+TGG 0.439315 7:-97615906 MsaT040188.1:CDS
TTAGGAAGAGCTGGAGGAGA+AGG 0.440207 7:-97615897 MsaT040188.1:CDS
GTATGCAAACTGGGTGAACT+AGG 0.462797 7:+97615672 None:intergenic
ACAATAACACCATGATGATA+AGG 0.476139 7:+97615738 None:intergenic
AATAACCAGTACTCTTCATC+TGG 0.479074 7:-97616062 MsaT040188.1:CDS
GGAATGGAGTTTCAACTATG+AGG 0.482299 7:-97615695 MsaT040188.1:CDS
GTTGACGTGGCTTACGGGTA+CGG 0.498372 7:+97615640 None:intergenic
TGGAGGAGAAGGTGTGGCGG+TGG 0.505343 7:-97615886 MsaT040188.1:CDS
CTCCAATATCATTTGAAGCA+TGG 0.514713 7:+97615824 None:intergenic
AGTACTCTTCATCTGGTCCT+TGG 0.522312 7:-97616055 MsaT040188.1:CDS
CTGAATGCACCTTATCATCA+TGG 0.534801 7:-97615747 MsaT040188.1:CDS
TCATATTTGTCTTCAGTCCA+AGG 0.540198 7:+97616038 None:intergenic
TTGACGTGGCTTACGGGTAC+GGG 0.548544 7:+97615641 None:intergenic
AAGGACCAGATGAAGAGTAC+TGG 0.567259 7:+97616057 None:intergenic
GAATGCCTGAAATCAAGATA+AGG 0.568676 7:+97615846 None:intergenic
TGATTCAGATGCTTATGCAA+AGG 0.569548 7:-97615940 MsaT040188.1:CDS
CTTTATAGTTAACGTTGACG+TGG 0.575487 7:+97615627 None:intergenic
AACACTGTGTCGGTGAAACT+AGG 0.582378 7:-97616176 MsaT040188.1:CDS
GTTTGTGGTTGTAGTGTTTG+GGG 0.590441 7:+97616004 None:intergenic
GCAAAGGACCAAAGGAGAGT+AGG 0.596139 7:-97615924 MsaT040188.1:CDS
ATGCTTATGCAAAGGACCAA+AGG 0.599434 7:-97615932 MsaT040188.1:CDS
GTACGAGATGTATGCAAACT+GGG 0.606095 7:+97615663 None:intergenic
TAGGTTGTGGAAGCTGCAGA+AGG 0.607735 7:-97616157 MsaT040188.1:CDS
AAGAGCTGGAGGAGAAGGTG+TGG 0.611252 7:-97615892 MsaT040188.1:CDS
GGTGGTTTAGGAAGAGCTGG+AGG 0.612792 7:-97615903 MsaT040188.1:CDS
GTGTCGGTGAAACTAGGTTG+TGG 0.621800 7:-97616170 MsaT040188.1:CDS
GCTTCTTCTGAACACTGTGT+CGG 0.624101 7:-97616186 MsaT040188.1:CDS
GGAATAGTATGGTGAAAATG+TGG 0.635363 7:+97615974 None:intergenic
AGCTGGAGGAGAAGGTGTGG+CGG 0.646351 7:-97615889 MsaT040188.1:CDS
AAGGACCAAAGGAGAGTAGG+TGG 0.647195 7:-97615921 MsaT040188.1:CDS
ATAGTATGGTGAAAATGTGG+TGG 0.720920 7:+97615977 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 97615635 97616228 97615635 ID=MsaG040188
Chr7 mRNA 97615635 97616228 97615635 ID=MsaT040188.1;Parent=MsaG040188
Chr7 exon 97615635 97616228 97615635 ID=MsaT040188.1.exon1;Parent=MsaT040188.1
Chr7 CDS 97615635 97616228 97615635 ID=cds.MsaT040188.1;Parent=MsaT040188.1
Gene Sequence

>MsaT040188.1

ATGTCTGGTTCAAGAAAGAAGCTTCTTCTGAACACTGTGTCGGTGAAACTAGGTTGTGGAAGCTGCAGAAGGCTAAAACTGAGTAACATATTCAGCCCAAAACCAAAATCCAAGAACCCCACTTACCAAAAACACAAACTTTACAATAACCAGTACTCTTCATCTGGTCCTTGGACTGAAGACAAATATGACAGTACAAGCACCCCAAACACTACAACCACAAACACTGCCACCACATTTTCACCATACTATTCCTCAAATTTTTCTGATTCAGATGCTTATGCAAAGGACCAAAGGAGAGTAGGTGGTTTAGGAAGAGCTGGAGGAGAAGGTGTGGCGGTGGAGAAAGATTCTGAAGATCCTTATCTTGATTTCAGGCATTCCATGCTTCAAATGATATTGGAGAATGAAATATACTCTAAAGATGACCTTAGAGAGCTTTTGAACTGTTTTCTTCAGCTGAATGCACCTTATCATCATGGTGTTATTGTTAGAGCTTTTACTGAGATTTGGAATGGAGTTTCAACTATGAGGCCTAGTTCACCCAGTTTGCATACATCTCGTACCCGTACCCGTAAGCCACGTCAACGTTAA
Protein sequence

>MsaT040188.1

MSGSRKKLLLNTVSVKLGCGSCRRLKLSNIFSPKPKSKNPTYQKHKLYNNQYSSSGPWTEDKYDSTSTPNTTTTNTATTFSPYYSSNFSDSDAYAKDQRRVGGLGRAGGEGVAVEKDSEDPYLDFRHSMLQMILENEIYSKDDLRELLNCFLQLNAPYHHGVIVRAFTEIWNGVSTMRPSSPSLHTSRTRTRKPRQR*