AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG029107

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029107 MtrunA17_Chr5g0440741 89.919 248 20 2 1 247 46 289 9.52e-155 431
MsaG029107 MtrunA17_Chr5g0440731 88.933 253 18 4 1 247 46 294 1.37e-152 426
MsaG029107 MtrunA17_Chr5g0409841 66.505 206 56 5 3 197 30 233 1.50e-81 244
MsaG029107 MtrunA17_Chr5g0409831 48.855 262 58 8 1 247 29 229 2.93e-57 182
MsaG029107 MtrunA17_Chr1g0210471 37.805 164 78 7 11 165 72 220 4.77e-23 94.0
MsaG029107 MtrunA17_Chr1g0162081 56.410 78 29 3 53 128 119 193 5.38e-23 95.1
MsaG029107 MtrunA17_Chr5g0429521 56.962 79 30 2 57 134 134 209 5.51e-23 95.1
MsaG029107 MtrunA17_Chr3g0104071 55.422 83 33 2 57 138 149 228 8.20e-23 94.7
MsaG029107 MtrunA17_Chr7g0241761 42.857 126 58 3 46 169 131 244 1.87e-22 93.6
MsaG029107 MtrunA17_Chr5g0436501 55.556 81 34 2 44 123 113 192 3.92e-22 92.0
MsaG029107 MtrunA17_Chr4g0062741 41.026 117 59 5 53 167 135 243 8.65e-21 89.0
MsaG029107 MtrunA17_Chr8g0365011 50.575 87 30 2 56 130 93 178 3.21e-19 84.3
MsaG029107 MtrunA17_Chr5g0432921 39.394 132 73 3 12 143 72 196 4.04e-19 83.2
MsaG029107 MtrunA17_Chr3g0135671 47.143 70 37 0 57 126 93 162 1.24e-18 82.0
MsaG029107 MtrunA17_Chr2g0331031 52.308 65 28 1 57 121 111 172 2.42e-18 82.8
MsaG029107 MtrunA17_Chr8g0364731 53.731 67 30 1 64 130 10 75 3.75e-18 79.7
MsaG029107 MtrunA17_Chr4g0055931 38.983 118 55 5 15 121 47 158 1.01e-17 80.9
MsaG029107 MtrunA17_Chr5g0432941 38.017 121 61 3 32 143 81 196 1.27e-16 76.3
MsaG029107 MtrunA17_Chr6g0488471 50.769 65 29 1 57 121 99 160 2.39e-16 76.6
MsaG029107 MtrunA17_Chr8g0389241 63.043 46 17 0 57 102 107 152 2.61e-16 76.3
MsaG029107 MtrunA17_Chr4g0059701 66.667 45 15 0 57 101 86 130 2.66e-16 76.3
MsaG029107 MtrunA17_Chr5g0415191 65.217 46 16 0 57 102 104 149 3.17e-16 76.6
MsaG029107 MtrunA17_Chr6g0452791 52.632 57 27 0 57 113 82 138 1.14e-15 72.4
MsaG029107 MtrunA17_Chr3g0113121 46.667 90 40 3 56 137 96 185 5.36e-15 71.6
MsaG029107 MtrunA17_Chr3g0092621 42.857 70 37 1 57 126 86 152 7.59e-15 70.5
MsaG029107 MtrunA17_Chr1g0192061 37.302 126 58 7 23 130 13 135 1.59e-14 69.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029107 AT5G58900.1 40.441 136 65 3 57 187 143 267 1.50e-23 96.7
MsaG029107 AT5G08520.1 55.556 81 32 2 53 132 115 192 3.20e-23 95.9
MsaG029107 AT5G04760.1 59.211 76 28 1 48 123 92 164 3.98e-23 94.0
MsaG029107 AT5G01200.1 60.000 70 24 2 57 125 148 214 1.07e-21 91.3
MsaG029107 AT2G38090.1 41.176 119 65 3 13 129 98 213 1.38e-21 91.7
MsaG029107 AT1G49010.1 52.439 82 34 3 53 132 131 209 4.54e-21 90.5
MsaG029107 AT3G10580.2 42.982 114 54 4 57 167 97 202 8.41e-20 85.9
MsaG029107 AT3G10580.1 42.982 114 54 4 57 167 97 202 1.25e-19 85.9
MsaG029107 AT3G11280.2 41.667 120 55 4 57 167 129 242 2.29e-19 84.7
MsaG029107 AT3G11280.1 41.667 120 55 4 57 167 129 242 2.29e-19 84.7
MsaG029107 AT5G61620.1 53.247 77 32 2 49 124 101 174 3.12e-19 85.5
MsaG029107 AT5G23650.1 51.316 76 34 1 57 132 122 194 3.36e-19 85.5
MsaG029107 AT5G05790.2 56.000 75 28 3 53 125 128 199 3.60e-18 82.0
MsaG029107 AT5G05790.1 56.000 75 28 3 53 125 128 199 3.60e-18 82.0
MsaG029107 AT5G47390.1 45.455 88 42 3 57 142 98 181 5.32e-18 82.4
MsaG029107 AT1G70000.1 65.217 46 16 0 57 102 100 145 9.18e-17 77.8
MsaG029107 AT1G70000.2 65.217 46 16 0 57 102 100 145 9.18e-17 77.8
MsaG029107 AT5G56840.1 53.448 58 27 0 57 114 93 150 1.31e-16 76.6
MsaG029107 AT4G09450.1 52.174 69 30 1 57 125 93 158 2.36e-16 75.5
MsaG029107 AT3G16350.1 63.043 46 17 0 57 102 139 184 4.03e-16 77.4
MsaG029107 AT1G19000.2 43.617 94 45 3 13 101 58 148 5.41e-16 75.9
MsaG029107 AT1G19000.1 43.617 94 45 3 13 101 58 148 5.41e-16 75.9
MsaG029107 AT1G74840.2 66.667 45 15 0 57 101 98 142 1.52e-15 73.9
MsaG029107 AT1G74840.1 66.667 45 15 0 57 101 98 142 2.02e-15 73.9
MsaG029107 AT3G10590.1 50.000 68 30 2 57 124 113 176 3.72e-13 66.6

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCCATATCTTTCACATTT+TGG 0.099316 5:-72986790 None:intergenic
CTGTCCAATGCCCTTTCCTT+GGG 0.257949 5:-72986417 None:intergenic
CTTGGGGCATGACTTTCTTC+TGG 0.281577 5:-72986400 None:intergenic
TTCTCAAGTTTGTTCATATC+AGG 0.295923 5:-72987172 None:intergenic
TCTGTCCAATGCCCTTTCCT+TGG 0.314383 5:-72986418 None:intergenic
CCACCAAAATGTGAAAGATA+TGG 0.352224 5:+72986787 MsaT029107.1:CDS
TGAGAAGATGCGCAACTTGT+TGG 0.359768 5:+72987189 MsaT029107.1:CDS
TTGGATAAAGCAACACCAAC+TGG 0.371101 5:-72987135 None:intergenic
AAATATTTCAAAAGAATTTG+TGG 0.425853 5:+72986715 MsaT029107.1:CDS
TCCTTTAGTCACTGCTCCTA+TGG 0.430956 5:+72987045 MsaT029107.1:CDS
TGTGAAAGATATGGAGAAGA+AGG 0.441203 5:+72986796 MsaT029107.1:CDS
GAACAACAACAGGAGAAAAC+TGG 0.441684 5:+72986268 MsaT029107.1:CDS
ATTGTTCTTGTTGTTTAAGA+TGG 0.446908 5:-72987098 None:intergenic
TTGGTGTTGCTTTATCCAAT+CGG 0.462526 5:+72987139 MsaT029107.1:CDS
AATCGGTTCTACAATTCCTT+CGG 0.468759 5:+72987000 MsaT029107.1:CDS
GCATAGCATGGAACAACAAC+AGG 0.485938 5:+72986258 None:intergenic
ATGTTGTGCTTGCTACCAAT+CGG 0.488172 5:+72986983 MsaT029107.1:CDS
AAAGTCATGCCCCAAGGAAA+GGG 0.493395 5:+72986407 MsaT029107.1:CDS
GGCACTGATATCATTGAGTC+GGG 0.504918 5:+72986289 MsaT029107.1:CDS
GGAGTCTCATGTTGTTCCAT+AGG 0.524662 5:-72987061 None:intergenic
ATGCCCCAAGGAAAGGGCAT+TGG 0.524782 5:+72986413 MsaT029107.1:CDS
GAAAGTCATGCCCCAAGGAA+AGG 0.527463 5:+72986406 MsaT029107.1:CDS
ATTAGAGTTTAGAATTGCAA+TGG 0.542743 5:-72986317 None:intergenic
GTCTGTTGCATTCCTTGAGG+AGG 0.550846 5:-72986932 None:intergenic
TTTAAGATGGCAGTGTCTTG+AGG 0.553601 5:-72987085 None:intergenic
GCATGGCTAGCAATTTGAGC+TGG 0.553651 5:-72986749 None:intergenic
TCCATAGGAGCAGTGACTAA+AGG 0.557140 5:-72987046 None:intergenic
TGTCCAATGCCCTTTCCTTG+GGG 0.558952 5:-72986416 None:intergenic
TGGCACTGATATCATTGAGT+CGG 0.569100 5:+72986288 MsaT029107.1:CDS
TCAGGAAGTGTAGAACCGAT+TGG 0.577352 5:-72987154 None:intergenic
ACACTTTGTAGCTCAACTGA+AGG 0.589388 5:-72986905 None:intergenic
ATTGGTAGCAAGCACAACAT+AGG 0.593970 5:-72986980 None:intergenic
TGGATAAAGCAACACCAACT+GGG 0.597123 5:-72987134 None:intergenic
ATTAAACAAGAATGACACAT+TGG 0.608999 5:+72986850 MsaT029107.1:CDS
GAAGGAATTGTAGAACCGAT+TGG 0.610200 5:-72986998 None:intergenic
CAAAGTGTGATTCCTCCTCA+AGG 0.618896 5:+72986920 MsaT029107.1:CDS
CAGAAGAAAGTCATGCCCCA+AGG 0.636413 5:+72986401 MsaT029107.1:CDS
AAGATGGCAGTGTCTTGAGG+AGG 0.644314 5:-72987082 None:intergenic
TGACAACTTGCAAACCCAGT+TGG 0.648867 5:+72987120 MsaT029107.1:CDS
AAGGAAAGGGCATTGGACAG+AGG 0.658250 5:+72986420 MsaT029107.1:CDS
TGTGTCTGTTGCATTCCTTG+AGG 0.673315 5:-72986935 None:intergenic
ACTGATATCATTGAGTCGGG+TGG 0.688176 5:+72986292 MsaT029107.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 72986265 72987225 72986265 ID=MsaG029107
Chr5 mRNA 72986265 72987225 72986265 ID=MsaT029107.1;Parent=MsaG029107
Chr5 exon 72986265 72986452 72986265 ID=MsaT029107.1.exon1;Parent=MsaT029107.1
Chr5 CDS 72986265 72986452 72986265 ID=cds.MsaT029107.1;Parent=MsaT029107.1
Chr5 exon 72986670 72987225 72986670 ID=MsaT029107.1.exon2;Parent=MsaT029107.1
Chr5 CDS 72986670 72987225 72986670 ID=cds.MsaT029107.1;Parent=MsaT029107.1
Gene Sequence

>MsaT029107.1

ATGGAACAACAACAGGAGAAAACTGGCACTGATATCATTGAGTCGGGTGGTGCCATTGCAATTCTAAACTCTAATGATAATAACGTCACAACTCTAAACTCTGACGAAAATAACTTAATTCAAGCTGAGTCAGTACCAGAAGAAAGTCATGCCCCAAGGAAAGGGCATTGGACAGAGGATGAACACAAGTTGTTTTTGAAGGGGATGAAAAAACATGGAAAGGGACGCTGGAAAAATATTTCAAAAGAATTTGTGGTGACAAAAACTCCAGCTCAAATTGCTAGCCATGCCCAAAAATACTTTATCCACCAAAATGTGAAAGATATGGAGAAGAAGGAGAAAAAGAGAAAAAGGATTCACGACACAACATTAAACAAGAATGACACATTGGTCACTGTCGCTGTTGATCAAGAAGATGAGATTCCTTCAGTTGAGCTACAAAGTGTGATTCCTCCTCAAGGAATGCAACAGACACAAACACAACAGAATGAGATTTCTCCTATGTTGTGCTTGCTACCAATCGGTTCTACAATTCCTTCGGTTCAGCAACAAAACGAGCTTACTCCTTTAGTCACTGCTCCTATGGAACAACATGAGACTCCTCCTCAAGACACTGCCATCTTAAACAACAAGAACAATGACAACTTGCAAACCCAGTTGGTGTTGCTTTATCCAATCGGTTCTACACTTCCTGATATGAACAAACTTGAGAAGATGCGCAACTTGTTGGCAAAAGAACTTTGA
Protein sequence

>MsaT029107.1

MEQQQEKTGTDIIESGGAIAILNSNDNNVTTLNSDENNLIQAESVPEESHAPRKGHWTEDEHKLFLKGMKKHGKGRWKNISKEFVVTKTPAQIASHAQKYFIHQNVKDMEKKEKKRKRIHDTTLNKNDTLVTVAVDQEDEIPSVELQSVIPPQGMQQTQTQQNEISPMLCLLPIGSTIPSVQQQNELTPLVTAPMEQHETPPQDTAILNNKNNDNLQTQLVLLYPIGSTLPDMNKLEKMRNLLAKEL*