AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG043243

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043243 MtrunA17_Chr8g0361671 91.646 395 24 4 1 392 3 391 2.25e-176 496
MsaG043243 MtrunA17_Chr7g0217231 39.701 335 118 9 63 393 86 340 9.17e-58 192
MsaG043243 MtrunA17_Chr6g0453231 70.968 62 18 0 64 125 90 151 7.34e-25 103
MsaG043243 MtrunA17_Chr6g0479901 62.903 62 22 1 273 333 101 162 5.15e-23 95.1
MsaG043243 MtrunA17_Chr6g0479901 55.714 70 24 2 65 134 19 81 1.31e-18 82.8
MsaG043243 MtrunA17_Chr4g0076821 57.353 68 29 0 273 340 284 351 1.55e-22 97.8
MsaG043243 MtrunA17_Chr4g0076821 62.963 54 18 1 65 118 113 164 4.20e-16 79.0
MsaG043243 MtrunA17_Chr1g0188441 60.317 63 25 0 273 335 124 186 8.87e-22 92.0
MsaG043243 MtrunA17_Chr1g0188441 64.407 59 17 2 61 118 5 60 8.10e-21 89.4
MsaG043243 MtrunA17_Chr5g0412501 63.492 63 23 0 273 335 209 271 1.66e-21 93.2
MsaG043243 MtrunA17_Chr5g0412501 46.154 104 51 3 65 166 78 178 2.12e-19 87.4
MsaG043243 MtrunA17_Chr5g0404271 56.250 64 28 0 273 336 233 296 3.08e-20 90.1
MsaG043243 MtrunA17_Chr5g0404271 51.899 79 29 2 50 121 84 160 7.74e-20 89.0
MsaG043243 MtrunA17_Chr3g0133181 55.932 59 26 0 273 331 211 269 2.83e-19 87.0
MsaG043243 MtrunA17_Chr3g0133181 59.259 54 20 1 63 116 78 129 2.41e-15 75.9
MsaG043243 MtrunA17_Chr2g0315941 40.426 94 55 1 238 331 171 263 1.48e-18 84.7
MsaG043243 MtrunA17_Chr2g0315941 50.000 76 36 1 41 116 44 117 1.24e-16 79.3
MsaG043243 MtrunA17_Chr8g0357741 48.000 75 38 1 261 335 23 96 4.24e-18 79.0
MsaG043243 MtrunA17_Chr8g0367691 46.575 73 39 0 259 331 191 263 8.51e-18 82.8
MsaG043243 MtrunA17_Chr8g0367691 59.322 59 22 1 58 116 62 118 7.51e-17 80.1
MsaG043243 MtrunA17_Chr3g0092371 56.667 60 24 1 63 122 18 75 2.71e-16 73.6
MsaG043243 MtrunA17_Chr6g0453221 62.963 54 14 1 62 115 18 65 1.80e-15 71.2
MsaG043243 MtrunA17_Chr4g0060731 55.932 59 21 1 58 116 18 71 4.63e-14 67.0
MsaG043243 MtrunA17_Chr5g0427051 55.556 54 22 1 63 116 56 107 1.10e-13 70.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043243 AT3G28920.1 41.254 303 102 7 63 365 50 276 7.43e-51 173
MsaG043243 AT1G69600.1 38.710 279 88 8 58 336 24 219 1.44e-50 170
MsaG043243 AT5G15210.1 72.308 65 18 0 62 126 53 117 7.55e-27 108
MsaG043243 AT5G15210.1 64.407 59 21 0 273 331 179 237 6.34e-22 94.7
MsaG043243 AT5G60480.1 69.355 62 19 0 58 119 30 91 5.04e-24 99.4
MsaG043243 AT5G60480.1 52.459 61 29 0 269 329 143 203 7.87e-17 79.3
MsaG043243 AT1G75240.1 61.905 63 24 0 270 332 237 299 2.72e-22 96.7
MsaG043243 AT1G75240.1 64.815 54 17 1 63 116 74 125 6.32e-17 81.3
MsaG043243 AT5G39760.1 77.193 57 13 0 61 117 52 108 5.25e-22 96.3
MsaG043243 AT1G14440.1 66.667 57 19 0 273 329 218 274 1.25e-21 94.7
MsaG043243 AT1G14440.1 54.545 66 28 1 62 127 87 150 1.24e-17 83.2
MsaG043243 AT1G14440.2 66.667 57 19 0 273 329 218 274 1.25e-21 94.7
MsaG043243 AT1G14440.2 54.545 66 28 1 62 127 87 150 1.24e-17 83.2
MsaG043243 AT4G24660.1 61.290 62 24 0 274 335 158 219 2.72e-21 92.0
MsaG043243 AT4G24660.1 62.500 56 19 1 63 118 47 100 1.56e-18 84.0
MsaG043243 AT4G24660.2 63.793 58 21 0 274 331 158 215 3.81e-21 91.7
MsaG043243 AT4G24660.2 62.500 56 19 1 63 118 47 100 1.33e-18 84.7
MsaG043243 AT2G02540.2 58.462 65 26 1 273 337 222 285 5.01e-21 93.2
MsaG043243 AT2G02540.2 60.345 58 21 1 61 118 83 138 6.12e-19 87.0
MsaG043243 AT2G02540.1 58.462 65 26 1 273 337 222 285 5.01e-21 93.2
MsaG043243 AT2G02540.1 60.345 58 21 1 61 118 83 138 6.12e-19 87.0
MsaG043243 AT2G18350.1 60.317 63 25 0 273 335 198 260 8.74e-21 91.3
MsaG043243 AT2G18350.1 65.385 52 16 1 65 116 82 131 2.96e-15 75.5
MsaG043243 AT5G65410.1 52.542 59 28 0 273 331 191 249 1.49e-18 85.5
MsaG043243 AT5G65410.1 62.963 54 18 1 63 116 73 124 1.85e-17 82.4
MsaG043243 AT1G74660.2 61.111 54 19 1 63 116 37 88 3.47e-17 76.6
MsaG043243 AT1G74660.1 61.111 54 19 1 63 116 37 88 5.90e-17 76.3
MsaG043243 AT3G50890.1 56.140 57 25 0 278 334 186 242 1.20e-16 79.3
MsaG043243 AT3G50890.1 55.172 58 24 1 63 120 58 113 2.96e-14 72.4
MsaG043243 AT3G28917.1 50.000 70 34 1 63 132 31 99 1.28e-16 75.5
MsaG043243 AT1G18835.1 61.111 54 16 1 63 116 24 72 9.69e-16 72.4
MsaG043243 AT5G42780.1 50.000 82 31 3 41 116 34 111 4.10e-14 72.0
MsaG043243 AT5G42780.1 45.000 60 33 0 274 333 180 239 2.95e-12 66.6
MsaG043243 AT1G14687.1 50.980 51 18 1 65 115 7 50 1.73e-12 65.5

Find 102 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGAAGACTTTAAGGTTAT+TGG 0.142282 8:-41663650 None:intergenic
TGTGAAAGATGAAGACTTTA+AGG 0.146671 8:-41663657 None:intergenic
GTTCATGTTTCTTCTGTTAA+TGG 0.168810 8:+41664736 MsaT043243.1:CDS
GGGCTTGTGCTTTGACTAAT+TGG 0.181458 8:-41664100 None:intergenic
TGGTGGTGGTGGAGTGGTGG+TGG 0.291314 8:-41663717 None:intergenic
TGGTGGTGGAGTGGTGGTGG+TGG 0.315193 8:-41663714 None:intergenic
GGTGATGATGGGCTTGAAAT+TGG 0.322434 8:-41664157 None:intergenic
TGGTGGAGTGGTGGTGGTGG+TGG 0.335251 8:-41663711 None:intergenic
GATTCCTTTGAAGATGGTTT+TGG 0.342164 8:-41664309 None:intergenic
CTTGGGCTTGTACTTTGACT+TGG 0.355993 8:-41664121 None:intergenic
ATTGGTGTTGTGGTAATGTT+TGG 0.361077 8:-41663632 None:intergenic
TCAGAATCTGATGTTGGAAT+TGG 0.361684 8:+41664601 MsaT043243.1:CDS
GCAGCACATTTGAGGGATCT+TGG 0.362520 8:-41663884 None:intergenic
TTTGAGGGATCTTGGGTCAT+TGG 0.365376 8:-41663876 None:intergenic
TTGAGGGATCTTGGGTCATT+GGG 0.378829 8:-41663875 None:intergenic
TGGTGGAGGTGATGGTTGTA+AGG 0.406538 8:-41663955 None:intergenic
TTGGGCTTGTACTTTGACTT+GGG 0.420438 8:-41664120 None:intergenic
GAGAGTGGTGGTGGTGATGA+TGG 0.424010 8:-41664169 None:intergenic
TGCTGTAGCGGTGGTGGTGG+TGG 0.424860 8:-41663731 None:intergenic
GCTCTTGTGGCTCACGGCGG+TGG 0.424923 8:-41663928 None:intergenic
GGTGGTGGTGGTTGTGGTGG+TGG 0.428852 8:-41664055 None:intergenic
CAGCACATTTGAGGGATCTT+GGG 0.434610 8:-41663883 None:intergenic
CTAGGTGGACATGCACTTGA+TGG 0.436606 8:+41663818 MsaT043243.1:CDS
GGTAACGGTGGTGGTGGTTG+TGG 0.441537 8:-41664061 None:intergenic
AACAACAACAACACAAGTAG+TGG 0.447009 8:+41664385 MsaT043243.1:CDS
GTGTAGATACAGCTAAGAAA+AGG 0.451834 8:-41664013 None:intergenic
GATGGGCTTGAAATTGGACT+TGG 0.452481 8:-41664151 None:intergenic
AATTGAGATTCCTTTGAAGA+TGG 0.453296 8:-41664315 None:intergenic
TTGGACTTGGGCTATGACTT+GGG 0.456233 8:-41664138 None:intergenic
GGTGGTGGAACTGTTGTTGA+AGG 0.460734 8:-41664040 None:intergenic
GCAAAAGAGTGATGATGGTT+TGG 0.463952 8:+41664489 MsaT043243.1:CDS
AAGTCTTCATCTTTCACAAA+CGG 0.466316 8:+41663662 MsaT043243.1:CDS
ATTGGACTTGGGCTATGACT+TGG 0.471642 8:-41664139 None:intergenic
TGTGGCAGTGGTAACGGTGG+TGG 0.478308 8:-41664070 None:intergenic
GCTGAAGAGTGATGATAAGA+AGG 0.480903 8:-41664202 None:intergenic
CTTTAAGGTTATTGGTGTTG+TGG 0.483964 8:-41663642 None:intergenic
GGCTGTTGCCGTAGTGGTGG+TGG 0.486744 8:-41663972 None:intergenic
AACGGTGGTGGTGGTTGTGG+TGG 0.489441 8:-41664058 None:intergenic
TGTTATGATTGTTGTTGTTG+TGG 0.493811 8:-41664366 None:intergenic
CAGAAATTCTGCAATGACAT+TGG 0.496065 8:+41664514 MsaT043243.1:CDS
GCCACAAGCAGCACATTTGA+GGG 0.496943 8:-41663891 None:intergenic
AGAGTGGTGGTGGTGATGAT+GGG 0.502065 8:-41664168 None:intergenic
GGTTGTTGCTGTAGCGGTGG+TGG 0.503558 8:-41663737 None:intergenic
TGGTGGTGGTTGTTGTGAGT+TGG 0.503692 8:-41663697 None:intergenic
TGTAGCGGTGGTGGTGGTGG+TGG 0.504525 8:-41663728 None:intergenic
CCACGGTGTGGCAGTGGTAA+CGG 0.506423 8:-41664076 None:intergenic
TGTAGATACAGCTAAGAAAA+GGG 0.508646 8:-41664012 None:intergenic
CGTAGTGGTGGTGGAGGTGA+TGG 0.511456 8:-41663963 None:intergenic
GGCAGTGGTAACGGTGGTGG+TGG 0.512134 8:-41664067 None:intergenic
AATGATGATAAGAATAATGC+TGG 0.514128 8:+41664649 MsaT043243.1:CDS
ATTCATCATATGAATGAAGA+TGG 0.518033 8:+41664703 MsaT043243.1:CDS
AAGAAATCAGAATCTGATGT+TGG 0.519643 8:+41664595 MsaT043243.1:CDS
CATATGATGAATGACATTGT+TGG 0.524357 8:-41664692 None:intergenic
TGTTGCTGTAGCGGTGGTGG+TGG 0.525490 8:-41663734 None:intergenic
GTGCTGCTTGTGGCTGTCAT+CGG 0.528504 8:+41663900 MsaT043243.1:CDS
AGCCACAAGCAGCACATTTG+AGG 0.529295 8:-41663892 None:intergenic
AAAATGCAAAAGAGTGATGA+TGG 0.531947 8:+41664484 MsaT043243.1:CDS
TCATTGGGATTGAGAGATGA+TGG 0.533214 8:-41663860 None:intergenic
GATAAGAATAATGCTGGTAA+TGG 0.547227 8:+41664655 MsaT043243.1:CDS
ATTGGACCACGGTGTGGCAG+TGG 0.548846 8:-41664082 None:intergenic
CATCAAGTGCATGTCCACCT+AGG 0.550202 8:-41663817 None:intergenic
GGCGCTGGCTGTTGCCGTAG+TGG 0.557045 8:-41663978 None:intergenic
ATCAAGTGCATGTCCACCTA+GGG 0.558096 8:-41663816 None:intergenic
GAAACAACCATGGAGGATGA+TGG 0.573167 8:-41663761 None:intergenic
ACCACCAAAACCATCTTCAA+AGG 0.573281 8:+41664305 MsaT043243.1:CDS
TCCCTCAAATGTGCTGCTTG+TGG 0.575497 8:+41663890 MsaT043243.1:CDS
GGATGTGCTCTTGTGGCTCA+CGG 0.578300 8:-41663934 None:intergenic
TTCATCATATGAATGAAGAT+GGG 0.583881 8:+41664704 MsaT043243.1:CDS
GGTAAATGTGAGAGTGGTGG+TGG 0.585939 8:-41664178 None:intergenic
TGCTTTGACTAATTGGACCA+CGG 0.587225 8:-41664093 None:intergenic
GTTGTAAGGATGTGCTCTTG+TGG 0.590997 8:-41663941 None:intergenic
GAAGAGTGATGATAAGAAGG+TGG 0.597173 8:-41664199 None:intergenic
ATGGGCTTGAAATTGGACTT+GGG 0.599703 8:-41664150 None:intergenic
GATGGTGGTTGTTGCTGTAG+CGG 0.603763 8:-41663743 None:intergenic
CATCACCTCCACCACCACTA+CGG 0.605016 8:+41663964 MsaT043243.1:CDS
AATGACATTGGTGTTTCTAG+AGG 0.607705 8:+41664526 MsaT043243.1:CDS
ACAACAACAACACAAGTAGT+GGG 0.608831 8:+41664386 MsaT043243.1:CDS
TGTTGCCGTAGTGGTGGTGG+AGG 0.609429 8:-41663969 None:intergenic
CCAAGAGCTAAAAGCATGTG+AGG 0.612524 8:-41664226 None:intergenic
GAAGGTGGTAAATGTGAGAG+TGG 0.625404 8:-41664184 None:intergenic
GGACATGCACTTGATGGATG+TGG 0.627027 8:+41663824 MsaT043243.1:CDS
GAGCAGAAAGAGAAGATGCA+TGG 0.627308 8:+41664439 MsaT043243.1:CDS
TAGATACAGCTAAGAAAAGG+GGG 0.630616 8:-41664010 None:intergenic
TGATCATGATCAGAGTGTTG+TGG 0.633373 8:-41664271 None:intergenic
ACAACCACCATCATCCTCCA+TGG 0.637561 8:+41663754 MsaT043243.1:CDS
GCTGGCTGTTGCCGTAGTGG+TGG 0.640850 8:-41663975 None:intergenic
ACAACAAGAATAGTAGCTTG+AGG 0.648719 8:+41664572 MsaT043243.1:CDS
TGACTAATTGGACCACGGTG+TGG 0.656646 8:-41664088 None:intergenic
TCATGATCAGAGTGTTGTGG+TGG 0.665411 8:-41664268 None:intergenic
GGTGGTTGTTGCTGTAGCGG+TGG 0.668364 8:-41663740 None:intergenic
GTAGATACAGCTAAGAAAAG+GGG 0.668570 8:-41664011 None:intergenic
TTCTTTGTAAGAAACAACCA+TGG 0.679590 8:-41663771 None:intergenic
GTACAGGACAAAATTCAGCA+AGG 0.690921 8:+41664417 MsaT043243.1:CDS
GGTGGTAAATGTGAGAGTGG+TGG 0.697780 8:-41664181 None:intergenic
AATCATGCTGCATCCCTAGG+TGG 0.699222 8:+41663803 MsaT043243.1:CDS
TTTGTAAGAAACAACCATGG+AGG 0.701159 8:-41663768 None:intergenic
CGGTGTGGCAGTGGTAACGG+TGG 0.702008 8:-41664073 None:intergenic
TGTGCTCTTGTGGCTCACGG+CGG 0.720758 8:-41663931 None:intergenic
ACAACCATGGAGGATGATGG+TGG 0.729586 8:-41663758 None:intergenic
CCGTTACCACTGCCACACCG+TGG 0.734370 8:+41664076 MsaT043243.1:CDS
AGATACAGCTAAGAAAAGGG+GGG 0.740250 8:-41664009 None:intergenic
TTGGGATTGAGAGATGATGG+TGG 0.770102 8:-41663857 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 41663593 41664774 41663593 ID=MsaG043243
Chr8 mRNA 41663593 41664774 41663593 ID=MsaT043243.1;Parent=MsaG043243
Chr8 exon 41663593 41664774 41663593 ID=MsaT043243.1.exon1;Parent=MsaT043243.1
Chr8 CDS 41663593 41664774 41663593 ID=cds.MsaT043243.1;Parent=MsaT043243.1
Gene Sequence

>MsaT043243.1

ATGACTTCAAGAAACATAGATGCAGATTCTCAAACACAACCAAACATTACCACAACACCAATAACCTTAAAGTCTTCATCTTTCACAAACGGAACACATAAACGCCAACTCACAACAACCACCACCACCACCACTCCACCACCACCACCACCGCTACAGCAACAACCACCATCATCCTCCATGGTTGTTTCTTACAAAGAATGTCTCAAAAATCATGCTGCATCCCTAGGTGGACATGCACTTGATGGATGTGGTGAATTCATGCCACCATCATCTCTCAATCCCAATGACCCAAGATCCCTCAAATGTGCTGCTTGTGGCTGTCATCGGAATTTCCACCGCCGTGAGCCACAAGAGCACATCCTTACAACCATCACCTCCACCACCACTACGGCAACAGCCAGCGCCAAAAACAGCCCCCCTTTTCTTAGCTGTATCTACACAACACCTTCAACAACAGTTCCACCACCACAACCACCACCACCGTTACCACTGCCACACCGTGGTCCAATTAGTCAAAGCACAAGCCCAAGTCAAAGTACAAGCCCAAGTCATAGCCCAAGTCCAATTTCAAGCCCATCATCACCACCACCACTCTCACATTTACCACCTTCTTATCATCACTCTTCAGCTCCTCACATGCTTTTAGCTCTTGGTGGAAATGCTTATTCAACACCACCACAACACTCTGATCATGATCAACACCACCACCACCACCAAAACCATCTTCAAAGGAATCTCAATTTTGCTTCATCTGTTGTTAAGCTTGAAAGCCACAACAACAACAATCATAACAACAACAACACAAGTAGTGGGAAAAAGAGGTACAGGACAAAATTCAGCAAGGAGCAGAAAGAGAAGATGCATGGTTTTTCTGAGAAATTGGGTTGGAAAATGCAAAAGAGTGATGATGGTTTGGTTCAGAAATTCTGCAATGACATTGGTGTTTCTAGAGGAGTTTTCAAAGTTTGGATGCATAACAACAAGAATAGTAGCTTGAGGAAGAAATCAGAATCTGATGTTGGAATTGGAATTGCTACTCAAATTGCTACTCAAAATGATGATAAGAATAATGCTGGTAATGGTAATGATGATGATTCCAACAATGTCATTCATCATATGAATGAAGATGGGTGTGTCAATGTTCATGTTTCTTCTGTTAATGGTTTATCCTCTTCTTAA
Protein sequence

>MsaT043243.1

MTSRNIDADSQTQPNITTTPITLKSSSFTNGTHKRQLTTTTTTTTPPPPPPLQQQPPSSSMVVSYKECLKNHAASLGGHALDGCGEFMPPSSLNPNDPRSLKCAACGCHRNFHRREPQEHILTTITSTTTTATASAKNSPPFLSCIYTTPSTTVPPPQPPPPLPLPHRGPISQSTSPSQSTSPSHSPSPISSPSSPPPLSHLPPSYHHSSAPHMLLALGGNAYSTPPQHSDHDQHHHHHQNHLQRNLNFASSVVKLESHNNNNHNNNNTSSGKKRYRTKFSKEQKEKMHGFSEKLGWKMQKSDDGLVQKFCNDIGVSRGVFKVWMHNNKNSSLRKKSESDVGIGIATQIATQNDDKNNAGNGNDDDSNNVIHHMNEDGCVNVHVSSVNGLSSS*