AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG029102

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029102 MtrunA17_Chr5g0440741 89.516 248 21 2 1 247 46 289 6.13e-154 429
MsaG029102 MtrunA17_Chr5g0440731 88.538 253 19 4 1 247 46 294 1.54e-151 423
MsaG029102 MtrunA17_Chr5g0409841 66.019 206 57 5 3 197 30 233 2.12e-81 243
MsaG029102 MtrunA17_Chr5g0409831 48.855 262 58 8 1 247 29 229 7.13e-57 181
MsaG029102 MtrunA17_Chr1g0162081 57.692 78 28 3 53 128 119 193 1.13e-23 96.7
MsaG029102 MtrunA17_Chr5g0429521 58.228 79 29 2 57 134 134 209 1.19e-23 97.1
MsaG029102 MtrunA17_Chr1g0210471 40.000 160 74 6 13 165 76 220 1.21e-23 95.5
MsaG029102 MtrunA17_Chr3g0104071 56.627 83 32 2 57 138 149 228 1.81e-23 96.7
MsaG029102 MtrunA17_Chr7g0241761 43.651 126 57 3 46 169 131 244 3.43e-23 95.9
MsaG029102 MtrunA17_Chr5g0436501 56.790 81 33 2 44 123 113 192 1.02e-22 93.6
MsaG029102 MtrunA17_Chr4g0062741 41.880 117 58 5 53 167 135 243 1.28e-21 91.3
MsaG029102 MtrunA17_Chr8g0365011 51.724 87 29 2 56 130 93 178 6.15e-20 86.3
MsaG029102 MtrunA17_Chr5g0432921 40.152 132 72 3 12 143 72 196 8.17e-20 84.7
MsaG029102 MtrunA17_Chr3g0135671 48.571 70 36 0 57 126 93 162 2.44e-19 84.0
MsaG029102 MtrunA17_Chr2g0331031 53.846 65 27 1 57 121 111 172 4.93e-19 84.7
MsaG029102 MtrunA17_Chr8g0364731 55.224 67 29 1 64 130 10 75 6.99e-19 81.6
MsaG029102 MtrunA17_Chr4g0055931 39.831 118 54 5 15 121 47 158 2.55e-18 82.4
MsaG029102 MtrunA17_Chr6g0488471 52.308 65 28 1 57 121 99 160 5.76e-17 78.2
MsaG029102 MtrunA17_Chr8g0389241 65.217 46 16 0 57 102 107 152 5.83e-17 78.2
MsaG029102 MtrunA17_Chr4g0059701 68.889 45 14 0 57 101 86 130 6.21e-17 78.2
MsaG029102 MtrunA17_Chr5g0415191 67.391 46 15 0 57 102 104 149 6.94e-17 78.6
MsaG029102 MtrunA17_Chr5g0432941 37.589 141 62 4 12 143 73 196 1.28e-16 76.3
MsaG029102 MtrunA17_Chr1g0192061 38.889 126 56 7 23 130 13 135 6.87e-16 73.6
MsaG029102 MtrunA17_Chr6g0452791 52.632 57 27 0 57 113 82 138 1.14e-15 72.4
MsaG029102 MtrunA17_Chr3g0092621 42.857 70 37 1 57 126 86 152 7.99e-15 70.5
MsaG029102 MtrunA17_Chr3g0113121 46.667 90 40 3 56 137 96 185 8.97e-15 71.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029102 AT5G58900.1 41.176 136 64 3 57 187 143 267 2.54e-24 98.6
MsaG029102 AT5G08520.1 56.790 81 31 2 53 132 115 192 6.44e-24 97.8
MsaG029102 AT5G04760.1 60.526 76 27 1 48 123 92 164 6.91e-24 95.9
MsaG029102 AT5G01200.1 61.429 70 23 2 57 125 148 214 2.33e-22 93.2
MsaG029102 AT2G38090.1 56.098 82 31 3 50 129 135 213 5.63e-22 92.4
MsaG029102 AT1G49010.1 53.659 82 33 3 53 132 131 209 7.84e-22 92.4
MsaG029102 AT3G11280.2 42.500 120 54 4 57 167 129 242 3.25e-20 87.0
MsaG029102 AT3G11280.1 42.500 120 54 4 57 167 129 242 3.25e-20 87.0
MsaG029102 AT5G61620.1 54.545 77 31 2 49 124 101 174 6.25e-20 87.4
MsaG029102 AT5G23650.1 52.632 76 33 1 57 132 122 194 8.15e-20 87.4
MsaG029102 AT3G10580.2 42.982 114 54 4 57 167 97 202 8.15e-20 85.9
MsaG029102 AT3G10580.1 40.984 122 61 4 57 175 97 210 1.07e-19 86.3
MsaG029102 AT5G05790.2 55.000 80 28 3 53 127 128 204 6.44e-19 84.0
MsaG029102 AT5G05790.1 55.000 80 28 3 53 127 128 204 6.44e-19 84.0
MsaG029102 AT5G47390.1 46.591 88 41 3 57 142 98 181 1.33e-18 84.3
MsaG029102 AT1G70000.1 67.391 46 15 0 57 102 100 145 2.15e-17 79.3
MsaG029102 AT1G70000.2 67.391 46 15 0 57 102 100 145 2.15e-17 79.3
MsaG029102 AT5G56840.1 55.172 58 26 0 57 114 93 150 2.77e-17 78.6
MsaG029102 AT4G09450.1 46.739 92 35 3 57 148 93 170 4.48e-17 77.4
MsaG029102 AT3G16350.1 65.217 46 16 0 57 102 139 184 9.47e-17 79.0
MsaG029102 AT1G19000.2 68.889 45 14 0 57 101 104 148 2.34e-16 77.0
MsaG029102 AT1G19000.1 68.889 45 14 0 57 101 104 148 2.34e-16 77.0
MsaG029102 AT1G74840.2 68.889 45 14 0 57 101 98 142 3.42e-16 75.9
MsaG029102 AT1G74840.1 68.889 45 14 0 57 101 98 142 4.20e-16 75.9
MsaG029102 AT3G10590.1 50.000 68 30 2 57 124 113 176 3.72e-13 66.6

Find 44 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:-72936458 None:intergenic
CTGTCCAATGCCCTTTCCTT+GGG 0.257949 5:-72936111 None:intergenic
CTTGGGGCATGACTTTCTTC+TGG 0.281577 5:-72936094 None:intergenic
TTCTCAAGTTTGTTCATATC+AGG 0.295923 5:-72936840 None:intergenic
TCTGTCCAATGCCCTTTCCT+TGG 0.314383 5:-72936112 None:intergenic
GAACAACAACAGGAGAAAAT+TGG 0.329021 5:+72935962 MsaT029102.1:CDS
CCACCAAAATGTGAAAGATA+TGG 0.352224 5:+72936455 MsaT029102.1:CDS
TGAGAAGATGCGCAGCTTGT+TGG 0.358077 5:+72936857 MsaT029102.1:CDS
TTGGATAAAGCAACACCAAC+TGG 0.371101 5:-72936803 None:intergenic
AAATATTTCAAAAGAATTTG+TGG 0.425853 5:+72936383 MsaT029102.1:CDS
TCCTTTAGTCACTGCTCCTA+TGG 0.430956 5:+72936713 MsaT029102.1:CDS
TGTGAAAGATATGGAGAAGA+AGG 0.441203 5:+72936464 MsaT029102.1:CDS
AATCGGTTCTACAATTCCTT+CGG 0.444800 5:+72936668 MsaT029102.1:CDS
ATTGTCCTTGTTGTTTAAGA+TGG 0.446908 5:-72936766 None:intergenic
ACCACCCGACTCAATGATAT+CGG 0.449690 5:-72935987 None:intergenic
TTGGTGTTGCTTTATCCAAT+CGG 0.462526 5:+72936807 MsaT029102.1:CDS
GCATAGCATGGAACAACAAC+AGG 0.485938 5:+72935952 None:intergenic
AAAGTCATGCCCCAAGGAAA+GGG 0.493395 5:+72936101 MsaT029102.1:CDS
ATGTTGTGCTTGCTGCCAAT+CGG 0.496477 5:+72936651 MsaT029102.1:CDS
GGAGTCTCATGTTGTTCCAT+AGG 0.524662 5:-72936729 None:intergenic
GGCACCGATATCATTGAGTC+GGG 0.524730 5:+72935983 MsaT029102.1:CDS
ATGCCCCAAGGAAAGGGCAT+TGG 0.524782 5:+72936107 MsaT029102.1:CDS
GCATGGCTAGCAATTTGAGT+TGG 0.525594 5:-72936417 None:intergenic
GAAAGTCATGCCCCAAGGAA+AGG 0.527463 5:+72936100 MsaT029102.1:CDS
ATCAGAGTTTAGAATTGCAA+TGG 0.548775 5:-72936011 None:intergenic
GTCTGTTGCATTCCTTGAGG+AGG 0.550846 5:-72936600 None:intergenic
TTTAAGATGGCAGTGTCTTG+AGG 0.553601 5:-72936753 None:intergenic
TCCATAGGAGCAGTGACTAA+AGG 0.557140 5:-72936714 None:intergenic
TGTCCAATGCCCTTTCCTTG+GGG 0.558952 5:-72936110 None:intergenic
TGGCACCGATATCATTGAGT+CGG 0.574828 5:+72935982 MsaT029102.1:CDS
TCAGGAAGTGTAGAACCGAT+TGG 0.577352 5:-72936822 None:intergenic
ATTGGCAGCAAGCACAACAT+AGG 0.587278 5:-72936648 None:intergenic
ACACTTTGTAGCTCAACTGA+AGG 0.589388 5:-72936573 None:intergenic
TGGATAAAGCAACACCAACT+GGG 0.597123 5:-72936802 None:intergenic
GAAGGAATTGTAGAACCGAT+TGG 0.605792 5:-72936666 None:intergenic
CACTGCCATCTTAAACAACA+AGG 0.607403 5:+72936761 MsaT029102.1:CDS
ATTAAACAAGAATGACACAT+TGG 0.608999 5:+72936518 MsaT029102.1:CDS
ACCGATATCATTGAGTCGGG+TGG 0.615037 5:+72935986 MsaT029102.1:CDS
CAAAGTGTGATTCCTCCTCA+AGG 0.618896 5:+72936588 MsaT029102.1:CDS
CAGAAGAAAGTCATGCCCCA+AGG 0.636413 5:+72936095 MsaT029102.1:CDS
AAGATGGCAGTGTCTTGAGG+AGG 0.644314 5:-72936750 None:intergenic
TGACAACTTGCAAACCCAGT+TGG 0.648867 5:+72936788 MsaT029102.1:CDS
AAGGAAAGGGCATTGGACAG+AGG 0.658250 5:+72936114 MsaT029102.1:CDS
TGTGTCTGTTGCATTCCTTG+AGG 0.673315 5:-72936603 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 72935959 72936893 72935959 ID=MsaG029102
Chr5 mRNA 72935959 72936893 72935959 ID=MsaT029102.1;Parent=MsaG029102
Chr5 exon 72935959 72936146 72935959 ID=MsaT029102.1.exon1;Parent=MsaT029102.1
Chr5 CDS 72935959 72936146 72935959 ID=cds.MsaT029102.1;Parent=MsaT029102.1
Chr5 exon 72936338 72936893 72936338 ID=MsaT029102.1.exon2;Parent=MsaT029102.1
Chr5 CDS 72936338 72936893 72936338 ID=cds.MsaT029102.1;Parent=MsaT029102.1
Gene Sequence

>MsaT029102.1

ATGGAACAACAACAGGAGAAAATTGGCACCGATATCATTGAGTCGGGTGGTGCCATTGCAATTCTAAACTCTGATGATAATAACGTCACAACTCTAAACTCTGACGAAAATAACTTAATTCAAGCTGAGTCAGTACCAGAAGAAAGTCATGCCCCAAGGAAAGGGCATTGGACAGAGGATGAACACAAGTTGTTTTTGAAGGGGATGAAAAAACATGGAAAGGGACGCTGGAAAAATATTTCAAAAGAATTTGTGGTGACAAAAACTCCAACTCAAATTGCTAGCCATGCCCAAAAATACTTTATCCACCAAAATGTGAAAGATATGGAGAAGAAGGAGAAAAAGAGAAAAAGGATTCACGACACAACATTAAACAAGAATGACACATTGGTCACTGTCGCTGTTGATCAAGAAGATGAGATTCCTTCAGTTGAGCTACAAAGTGTGATTCCTCCTCAAGGAATGCAACAGACACAAACACAACAGAATGAGATTTCTCCTATGTTGTGCTTGCTGCCAATCGGTTCTACAATTCCTTCGGTTCAGCAACAAAACGAGCTTACTCCTTTAGTCACTGCTCCTATGGAACAACATGAGACTCCTCCTCAAGACACTGCCATCTTAAACAACAAGGACAATGACAACTTGCAAACCCAGTTGGTGTTGCTTTATCCAATCGGTTCTACACTTCCTGATATGAACAAACTTGAGAAGATGCGCAGCTTGTTGGCAAAAGAACTTTGA
Protein sequence

>MsaT029102.1

MEQQQEKIGTDIIESGGAIAILNSDDNNVTTLNSDENNLIQAESVPEESHAPRKGHWTEDEHKLFLKGMKKHGKGRWKNISKEFVVTKTPTQIASHAQKYFIHQNVKDMEKKEKKRKRIHDTTLNKNDTLVTVAVDQEDEIPSVELQSVIPPQGMQQTQTQQNEISPMLCLLPIGSTIPSVQQQNELTPLVTAPMEQHETPPQDTAILNNKDNDNLQTQLVLLYPIGSTLPDMNKLEKMRSLLAKEL*