AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028248


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028248 MtrunA17_Chr3g0077461 66.667 219 60 2 2 208 11 228 5.04e-94 283
MsaG028248 MtrunA17_Chr3g0077461 48.387 217 81 4 13 201 252 465 6.98e-59 192
MsaG028248 MtrunA17_Chr3g0077411 63.721 215 58 2 13 208 40 253 5.33e-87 266
MsaG028248 MtrunA17_Chr3g0077411 45.188 239 81 4 13 202 277 514 5.64e-59 194
MsaG028248 MtrunA17_Chr3g0077361 64.929 211 54 2 13 203 55 265 1.17e-81 252
MsaG028248 MtrunA17_Chr3g0077361 47.449 196 96 2 13 202 304 498 2.20e-46 160
MsaG028248 MtrunA17_Chr5g0429931 51.867 241 74 2 11 210 8 247 1.17e-77 234
MsaG028248 MtrunA17_Chr4g0009491 62.944 197 54 1 9 186 8 204 6.52e-77 238
MsaG028248 MtrunA17_Chr4g0009491 48.925 186 54 1 13 157 240 425 1.07e-49 167
MsaG028248 MtrunA17_Chr3g0077451 54.054 222 69 3 13 202 11 231 1.77e-72 220
MsaG028248 MtrunA17_Chr3g0077381 58.525 217 48 3 10 206 32 226 2.11e-70 221
MsaG028248 MtrunA17_Chr3g0077381 48.603 179 58 2 13 157 262 440 1.13e-47 162
MsaG028248 MtrunA17_Chr3g0077431 49.741 193 64 3 42 202 1 192 1.95e-52 168
MsaG028248 MtrunA17_Chr3g0077421 47.938 194 67 3 42 202 1 193 8.09e-49 159
MsaG028248 MtrunA17_Chr3g0077441 47.938 194 67 3 42 202 1 193 8.09e-49 159
MsaG028248 MtrunA17_Chr1g0162441 41.935 93 54 0 4 96 13 105 2.40e-20 88.6
MsaG028248 MtrunA17_Chr3g0103171 45.882 85 46 0 12 96 4 88 2.54e-19 84.0
MsaG028248 MtrunA17_Chr7g0233521 34.286 105 65 1 14 114 2 106 1.35e-17 79.3
MsaG028248 MtrunA17_Chr3g0103181 46.067 89 46 1 10 96 20 108 1.65e-17 79.3
MsaG028248 MtrunA17_Chr3g0103151 44.944 89 47 1 10 96 20 108 2.73e-17 76.3
MsaG028248 MtrunA17_Chr5g0419201 36.145 83 53 0 14 96 32 114 2.80e-17 77.0
MsaG028248 MtrunA17_Chr7g0233561 34.579 107 62 1 13 111 33 139 4.57e-17 78.6
MsaG028248 MtrunA17_Chr4g0033961 35.577 104 67 0 1 104 9 112 6.79e-17 78.6
MsaG028248 MtrunA17_Chr3g0103191 42.857 84 48 0 13 96 25 108 6.33e-16 74.3
MsaG028248 MtrunA17_Chr1g0162421 44.444 63 34 1 7 69 3 64 6.70e-16 69.7
MsaG028248 MtrunA17_Chr7g0233541 33.929 112 67 3 14 118 2 113 2.49e-15 73.2
MsaG028248 MtrunA17_Chr1g0162411 41.667 84 47 1 13 96 22 103 4.89e-15 73.6
MsaG028248 MtrunA17_Chr1g0208771 30.909 110 71 1 11 115 10 119 1.84e-14 71.6
MsaG028248 MtrunA17_Chr3g0131891 34.118 85 56 0 14 98 35 119 4.76e-14 70.1
MsaG028248 MtrunA17_Chr7g0233531 30.357 112 75 2 14 124 2 111 5.24e-14 69.3
MsaG028248 MtrunA17_Chr7g0233571 32.979 94 59 1 8 97 16 109 2.27e-13 67.0
MsaG028248 MtrunA17_Chr8g0390841 33.333 84 56 0 13 96 54 137 3.49e-13 68.2
MsaG028248 MtrunA17_Chr1g0163071 37.647 85 53 0 14 98 2 86 2.17e-12 65.1
MsaG028248 MtrunA17_Chr1g0162161 28.346 127 86 3 11 137 1 122 4.79e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028248 AT3G18990.1 41.667 84 49 0 13 96 21 104 3.07e-18 82.4
MsaG028248 AT3G18990.2 41.667 84 49 0 13 96 21 104 6.81e-18 81.6
MsaG028248 AT1G49475.1 38.542 96 58 1 11 106 47 141 1.81e-16 75.1
MsaG028248 AT4G01580.1 34.737 95 62 0 4 98 36 130 1.27e-15 72.8
MsaG028248 AT3G18960.2 33.684 95 63 0 4 98 36 130 3.18e-15 71.6
MsaG028248 AT3G18960.1 33.684 95 63 0 4 98 36 130 7.71e-15 70.9
MsaG028248 AT3G18960.3 35.632 87 56 0 12 98 7 93 2.11e-14 68.9

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTGCTTTCCTTGAGAATTT+TGG 0.150373 5:+59544490 None:intergenic
GATGAGTTTATAACAAGATT+TGG 0.242784 5:-59544968 MsaT028248.1:CDS
ATTTCCTATCCATTCAAAAC+TGG 0.287220 5:-59544734 MsaT028248.1:CDS
CTGTAGTGACCAATCTTTAG+AGG 0.292480 5:+59545000 None:intergenic
ATGAGTTTATAACAAGATTT+GGG 0.360502 5:-59544967 MsaT028248.1:CDS
TTCAAAACTGGGAAGACTAA+TGG 0.374313 5:-59544722 MsaT028248.1:CDS
AAATCAATGCGAATAACGTT+TGG 0.379436 5:-59544432 MsaT028248.1:CDS
TGGAGCTTGAACAGAACATT+TGG 0.389188 5:+59544510 None:intergenic
AATCTTGTTATAAACTCATC+TGG 0.413404 5:+59544971 None:intergenic
GAACACTACTCTATCTGTTA+TGG 0.428310 5:-59544830 MsaT028248.1:CDS
TATGTAGATTTCAAGTATGA+AGG 0.431237 5:-59544803 MsaT028248.1:CDS
TACTTTGCAGCGAATTCAGC+AGG 0.458261 5:+59544540 None:intergenic
ATCACCCTTCCTCTAAAGAT+TGG 0.475124 5:-59545009 MsaT028248.1:CDS
ATATCGACAGTCAAAGGATT+GGG 0.499850 5:+59544667 None:intergenic
TTGGATTCTTTAGATTTGCA+AGG 0.513403 5:-59544413 MsaT028248.1:CDS
TGATGGTTGTGAATGGCATA+TGG 0.515259 5:-59544909 MsaT028248.1:CDS
CATATCGACAGTCAAAGGAT+TGG 0.519552 5:+59544666 None:intergenic
AAGGATTGGGAACGAAAAGA+AGG 0.522583 5:+59544680 None:intergenic
CTGTTCCTGATGGTTGTGAA+TGG 0.538019 5:-59544916 MsaT028248.1:CDS
CACCGCATATCGACAGTCAA+AGG 0.544452 5:+59544661 None:intergenic
TTTCCTATCCATTCAAAACT+GGG 0.546790 5:-59544733 MsaT028248.1:CDS
ATGTAGATTTCAAGTATGAA+GGG 0.551054 5:-59544802 MsaT028248.1:CDS
TTCAAGCTCCAAAATTCTCA+AGG 0.552648 5:-59544498 MsaT028248.1:CDS
ATATGCCATTCACAACCATC+AGG 0.554864 5:+59544911 None:intergenic
TGGATTCTTTAGATTTGCAA+GGG 0.565236 5:-59544412 MsaT028248.1:CDS
AGTGACCAATCTTTAGAGGA+AGG 0.568653 5:+59545004 None:intergenic
TATTGTGTATTGAATAAAAG+CGG 0.577376 5:-59544459 MsaT028248.1:CDS
GCCACGATTACTGTTCCTGA+TGG 0.580999 5:-59544926 MsaT028248.1:CDS
TGTGTATTGAATAAAAGCGG+TGG 0.597510 5:-59544456 MsaT028248.1:CDS
AGGGAAAACAATCTATCCGA+TGG 0.598527 5:-59544393 MsaT028248.1:CDS
AAAATTCTCAAGGAAAGCAG+TGG 0.599450 5:-59544488 MsaT028248.1:CDS
ATAGAGTAGTGTTCTGCGAA+CGG 0.599484 5:+59544839 None:intergenic
AGGATTGGGAACGAAAAGAA+GGG 0.605751 5:+59544681 None:intergenic
GTGACCAATCTTTAGAGGAA+GGG 0.612342 5:+59545005 None:intergenic
ATCCTTTGACTGTCGATATG+CGG 0.632326 5:-59544663 MsaT028248.1:intron
AAATTCTCAAGGAAAGCAGT+GGG 0.637805 5:-59544487 MsaT028248.1:CDS
AAACTCATACATAACTCCAT+CGG 0.639008 5:+59544377 None:intergenic
ACAAGTTACAGCTTCTCACA+CGG 0.646742 5:-59544322 MsaT028248.1:CDS
ATGAGTTTGAGCTTATCAAG+AGG 0.652349 5:-59544362 MsaT028248.1:CDS
ACCATCAGGAACAGTAATCG+TGG 0.675565 5:+59544925 None:intergenic
CATATGGAAGTAAAGAAACG+TGG 0.701477 5:-59544893 MsaT028248.1:CDS
GTAACTTGTAACACAACACG+CGG 0.742805 5:+59544336 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 59544260 59545035 59544260 ID=MsaG028248
Chr5 mRNA 59544260 59545035 59544260 ID=MsaT028248.1;Parent=MsaG028248
Chr5 exon 59544260 59544568 59544260 ID=MsaT028248.1.exon2;Parent=MsaT028248.1
Chr5 CDS 59544260 59544568 59544260 ID=cds.MsaT028248.1;Parent=MsaT028248.1
Chr5 exon 59544664 59545035 59544664 ID=MsaT028248.1.exon1;Parent=MsaT028248.1
Chr5 CDS 59544664 59545035 59544664 ID=cds.MsaT028248.1;Parent=MsaT028248.1
Gene Sequence

>MsaT028248.1

ATGTATCACCCTTCCTCTAAAGATTGGTCACTACAGAGAATTCCAGATGAGTTTATAACAAGATTTGGGAATGAACTCAACAATGTTGCCACGATTACTGTTCCTGATGGTTGTGAATGGCATATGGAAGTAAAGAAACGTGGCAACGAAGTTTTCTTTTGCAAAAATTGGCAACCGTTCGCAGAACACTACTCTATCTGTTATGGTTGTTATGTAGATTTCAAGTATGAAGGGAATTCAAAGTTTAATGTTGTTATATATGATACAAATTCTGTCGAGATTTCCTATCCATTCAAAACTGGGAAGACTAATGGAGAACCAAACCCAAAAAACCCTTCTTTTCGTTCCCAATCCTTTGACTGTCGATATGCGTATGTTCCTGCTGAATTCGCTGCAAAGTATTTGAAACCAAATGTTCTGTTCAAGCTCCAAAATTCTCAAGGAAAGCAGTGGGAAGTTTATTGTGTATTGAATAAAAGCGGTGGAAAATCAATGCGAATAACGTTTGGATTCTTTAGATTTGCAAGGGAAAACAATCTATCCGATGGAGTTATGTATGAGTTTGAGCTTATCAAGAGGAAGCCGCGTGTTGTGTTACAAGTTACAGCTTCTCACACGGTAAAGAGCTGTTTCACATTCGTTTATGCGTCAGTTCTATTTTCTTACAATTTTTTCTTCTAA

Protein sequence

>MsaT028248.1

MYHPSSKDWSLQRIPDEFITRFGNELNNVATITVPDGCEWHMEVKKRGNEVFFCKNWQPFAEHYSICYGCYVDFKYEGNSKFNVVIYDTNSVEISYPFKTGKTNGEPNPKNPSFRSQSFDCRYAYVPAEFAAKYLKPNVLFKLQNSQGKQWEVYCVLNKSGGKSMRITFGFFRFARENNLSDGVMYEFELIKRKPRVVLQVTASHTVKSCFTFVYASVLFSYNFFF*