AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008048

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008048 MtrunA17_Chr2g0299081 91.246 297 26 0 1 297 6 302 1.16e-178 494
MsaG008048 MtrunA17_Chr4g0071301 43.807 331 137 16 3 291 10 333 8.20e-48 162
MsaG008048 MtrunA17_Chr1g0151461 62.195 82 25 2 147 228 170 245 9.95e-26 103
MsaG008048 MtrunA17_Chr4g0068031 62.000 50 19 0 159 208 25 74 2.43e-17 77.4
MsaG008048 MtrunA17_Chr7g0271861 75.000 36 9 0 164 199 22 57 3.78e-14 68.2
MsaG008048 MtrunA17_Chr5g0404131 59.615 52 21 0 149 200 177 228 2.81e-13 68.9
MsaG008048 MtrunA17_Chr1g0213161 64.865 37 13 0 163 199 151 187 8.59e-12 63.9
MsaG008048 MtrunA17_Chr8g0373231 65.789 38 13 0 163 200 124 161 5.17e-11 61.6
MsaG008048 MtrunA17_Chr1g0146231 42.647 68 38 1 164 230 234 301 6.54e-11 62.4
MsaG008048 MtrunA17_Chr2g0326771 33.333 117 52 2 117 232 194 285 8.15e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008048 AT4G26150.1 35.714 294 141 10 44 291 61 352 1.36e-26 107
MsaG008048 AT5G56860.1 36.318 201 79 11 46 197 63 263 6.30e-19 86.7
MsaG008048 AT5G49300.1 62.500 56 20 1 147 201 18 73 6.00e-18 79.0
MsaG008048 AT5G26930.1 73.171 41 11 0 161 201 23 63 2.04e-17 77.0
MsaG008048 AT3G06740.1 63.830 47 17 0 156 202 33 79 5.49e-15 71.2
MsaG008048 AT3G16870.1 68.293 41 13 0 161 201 39 79 2.29e-14 70.5
MsaG008048 AT4G16141.1 65.854 41 14 0 161 201 34 74 4.00e-14 70.1
MsaG008048 AT1G08010.2 42.857 84 47 1 147 229 203 286 1.76e-13 70.1
MsaG008048 AT1G08010.1 42.857 84 47 1 147 229 203 286 1.76e-13 70.1
MsaG008048 AT1G08010.3 42.857 84 47 1 147 229 203 286 1.76e-13 70.1
MsaG008048 AT3G50870.1 61.538 52 19 1 163 214 151 201 1.41e-12 67.4
MsaG008048 AT1G08000.2 48.148 54 28 0 146 199 200 253 2.01e-12 67.0
MsaG008048 AT1G08000.1 48.148 54 28 0 146 199 200 253 2.01e-12 67.0
MsaG008048 AT4G36620.1 59.184 49 20 0 159 207 70 118 3.76e-12 64.7
MsaG008048 AT2G18380.1 70.732 41 11 1 164 203 92 132 4.55e-12 64.7
MsaG008048 AT2G45050.1 37.500 80 49 1 152 230 167 246 1.31e-11 63.9
MsaG008048 AT3G60530.1 38.158 76 46 1 163 237 157 232 1.75e-11 63.5
MsaG008048 AT4G32890.1 36.458 96 59 2 164 257 197 292 1.93e-11 63.9

Find 58 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATCTTCTGGCTTGCTTAA+TGG 0.177034 2:-27150971 MsaT008048.1:CDS
ATCTTGTTTGATCTTGATTT+TGG 0.229038 2:+27152584 None:intergenic
CTACTCATGGCTTTATCTTC+TGG 0.251698 2:-27150983 MsaT008048.1:CDS
TTTCAAACAACAACACTGTT+AGG 0.256322 2:-27152035 MsaT008048.1:CDS
TTAATCATTCTCTTCTTTGA+TGG 0.270861 2:+27152162 None:intergenic
TCCTCAGTTCTTACTAGATT+TGG 0.275505 2:+27152075 None:intergenic
ATCAAACAAGATCTTATTCT+TGG 0.275784 2:-27152573 MsaT008048.1:CDS
GGATCATCAAGAAGTGAAAA+AGG 0.339108 2:-27152259 MsaT008048.1:CDS
AACTTCTTTCCCTTCACATA+TGG 0.359398 2:+27151172 None:intergenic
CACCATTTGCAGCGGCTGCA+AGG 0.367222 2:+27151218 None:intergenic
CATCTTGAGGGAAAACTTGA+TGG 0.376163 2:+27151023 None:intergenic
GCCCTTGCAGCCGCTGCAAA+TGG 0.402224 2:-27151220 MsaT008048.1:CDS
CTCTGGAGAAGTGGACCAAC+TGG 0.407869 2:-27151979 MsaT008048.1:CDS
ACCATTTGCAGCGGCTGCAA+GGG 0.414991 2:+27151219 None:intergenic
TTGTAACTTCTGGTGAATCA+TGG 0.418749 2:-27152281 MsaT008048.1:CDS
CAAAGAAGAGAATGATTAAG+AGG 0.444414 2:-27152158 MsaT008048.1:CDS
TCAAACAAGATCTTATTCTT+GGG 0.457205 2:-27152572 MsaT008048.1:CDS
TTCAAACAACAACACTGTTA+GGG 0.464863 2:-27152034 MsaT008048.1:CDS
GAGAATGATTAAGAGGATGA+TGG 0.470043 2:-27152151 MsaT008048.1:CDS
TAGAGAAGAAGATGAAGAAG+TGG 0.474019 2:+27152627 None:intergenic
TTGAAGATTTGATAACAAGT+TGG 0.482551 2:-27151063 MsaT008048.1:CDS
AGTTGCAAGTCAGAAGGAAA+AGG 0.484061 2:-27151153 MsaT008048.1:CDS
GAGGATGATGGAAGATCAAA+GGG 0.487515 2:-27152139 MsaT008048.1:CDS
TGTAACTTCTGGTGAATCAT+GGG 0.493931 2:-27152280 MsaT008048.1:CDS
GATGCAGAATAACGATAAGT+TGG 0.493962 2:+27152724 None:intergenic
TTGGTCCACTTCTCCAGAGA+GGG 0.496789 2:+27151983 None:intergenic
ATAACGATAAGTTGGTATCA+TGG 0.500444 2:+27152732 None:intergenic
CTACACCATCACTTAGTATG+TGG 0.505698 2:+27152542 None:intergenic
AACAAGTTGGAGCAACAACT+TGG 0.506773 2:-27151050 MsaT008048.1:CDS
ACACAACTAAGACCCCTCTC+TGG 0.508622 2:-27151996 MsaT008048.1:CDS
AATGTGCACCACAATTGAAA+AGG 0.511689 2:-27151117 MsaT008048.1:CDS
CAGCCTCCTTCACATCTTGA+GGG 0.514868 2:+27151011 None:intergenic
GTTGATTAGTATTGAAGAGA+TGG 0.528693 2:+27152653 None:intergenic
AGAGGATGATGGAAGATCAA+AGG 0.536944 2:-27152140 MsaT008048.1:CDS
GCAGCCTCCTTCACATCTTG+AGG 0.537105 2:+27151010 None:intergenic
AGTCACTTTGCAATGCCTGC+GGG 0.545864 2:-27151267 MsaT008048.1:CDS
AAGACCCCTCTCTGGAGAAG+TGG 0.553472 2:-27151988 MsaT008048.1:CDS
GAAAGAAGTTGCAAGTCAGA+AGG 0.562695 2:-27151159 MsaT008048.1:CDS
GGCAGAGAAACCATATGTGA+AGG 0.565007 2:-27151182 MsaT008048.1:CDS
TGCACCACAATTGAAAAGGA+AGG 0.566431 2:-27151113 MsaT008048.1:CDS
GGAGGCTGCTATTCTACTCA+TGG 0.567161 2:-27150996 MsaT008048.1:CDS
AAATCTTAGCATTCATCAGA+AGG 0.570288 2:+27150944 None:intergenic
CATACTAAGTGATGGTGTAG+AGG 0.591541 2:-27152539 MsaT008048.1:intron
AAGTGGACCAACTGGTCCCA+AGG 0.591915 2:-27151971 MsaT008048.1:intron
TGCAAATGGTGAAACTCTTG+TGG 0.595671 2:-27151206 MsaT008048.1:CDS
AGAGAGGGGTCTTAGTTGTG+TGG 0.598153 2:+27151998 None:intergenic
ATCTTGAGGGAAAACTTGAT+GGG 0.607027 2:+27151024 None:intergenic
ATATGTACCTTGGGACCAGT+TGG 0.609719 2:+27151964 None:intergenic
CAGTCACTTTGCAATGCCTG+CGG 0.611660 2:-27151268 MsaT008048.1:CDS
TGGTCCACTTCTCCAGAGAG+GGG 0.626088 2:+27151984 None:intergenic
GCAGAGAAACCATATGTGAA+GGG 0.631828 2:-27151181 MsaT008048.1:CDS
GCACCACAATTGAAAAGGAA+GGG 0.634758 2:-27151112 MsaT008048.1:CDS
TTTCCCTCAAGATGTGAAGG+AGG 0.643884 2:-27151014 MsaT008048.1:CDS
AAGAGTTTCACCATTTGCAG+CGG 0.647090 2:+27151210 None:intergenic
TCAAACCACATACTAAGTGA+TGG 0.647670 2:-27152547 MsaT008048.1:CDS
AAATGGTGAAACTCTTGTGG+TGG 0.679475 2:-27151203 MsaT008048.1:CDS
GTTGGTCCACTTCTCCAGAG+AGG 0.682429 2:+27151982 None:intergenic
ACCAAATCTAGTAAGAACTG+AGG 0.700207 2:-27152076 MsaT008048.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 27150949 27152752 27150949 ID=MsaG008048
Chr2 mRNA 27150949 27152752 27150949 ID=MsaT008048.1;Parent=MsaG008048
Chr2 exon 27150949 27151287 27150949 ID=MsaT008048.1.exon3;Parent=MsaT008048.1
Chr2 CDS 27150949 27151287 27150949 ID=cds.MsaT008048.1;Parent=MsaT008048.1
Chr2 exon 27151972 27152313 27151972 ID=MsaT008048.1.exon2;Parent=MsaT008048.1
Chr2 CDS 27151972 27152313 27151972 ID=cds.MsaT008048.1;Parent=MsaT008048.1
Chr2 exon 27152540 27152752 27152540 ID=MsaT008048.1.exon1;Parent=MsaT008048.1
Chr2 CDS 27152540 27152752 27152540 ID=cds.MsaT008048.1;Parent=MsaT008048.1
Gene Sequence

>MsaT008048.1

ATGATACCAACTTATCGTTATTCTGCATCTTCTCCTCCTATGCCTTTTTTTGATCTAAATAATGAAGATCACAGTCACCATCTCTTCAATACTAATCAACAAGCCACTTCTTCATCTTCTTCTCTATCATACTCTATACTCTTCAACCAAAATCAAGATCAAACAAGATCTTATTCTTGGGAGTCAAACCACATACTAAGTGATGGTGTAGAGGTTAAGAATTTTGTAACTTCTGGTGAATCATGGGATCATCAAGAAGTGAAAAAGGATGAAAAAGATTGGAAGAAAGAAGACGAGTATGAAAGTTTTATGGCTGAGGATAGAACTTCAATGAAGTTGATGCCATCAAAGAAGAGAATGATTAAGAGGATGATGGAAGATCAAAGGGCTTCTGAGCAAGAGTTTGAGACACAAATTAAGCAATTATCACCAAATCTAGTAAGAACTGAGGATAGTAGCAACAACAATTTTTCAAACAACAACACTGTTAGGGTTTGTACTGACTGCCACACAACTAAGACCCCTCTCTGGAGAAGTGGACCAACTGGTCCCAAGTCACTTTGCAATGCCTGCGGGATTCGACAAAGAAAAGCAAGACGCGCCCTTGCAGCCGCTGCAAATGGTGAAACTCTTGTGGTGGCAGAGAAACCATATGTGAAGGGAAAGAAGTTGCAAGTCAGAAGGAAAAGGTTAAAAACTGATCAATGTGCACCACAATTGAAAAGGAAGGGTAAAAGTGAAAACAAGTGTAATAATTTTGAAGATTTGATAACAAGTTGGAGCAACAACTTGGCTTCCCATCAAGTTTTCCCTCAAGATGTGAAGGAGGCTGCTATTCTACTCATGGCTTTATCTTCTGGCTTGCTTAATGGATTTCCTTCTGATGAATGCTAA
Protein sequence

>MsaT008048.1

MIPTYRYSASSPPMPFFDLNNEDHSHHLFNTNQQATSSSSSLSYSILFNQNQDQTRSYSWESNHILSDGVEVKNFVTSGESWDHQEVKKDEKDWKKEDEYESFMAEDRTSMKLMPSKKRMIKRMMEDQRASEQEFETQIKQLSPNLVRTEDSSNNNFSNNNTVRVCTDCHTTKTPLWRSGPTGPKSLCNACGIRQRKARRALAAAANGETLVVAEKPYVKGKKLQVRRKRLKTDQCAPQLKRKGKSENKCNNFEDLITSWSNNLASHQVFPQDVKEAAILLMALSSGLLNGFPSDEC*