AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040647

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040647 MtrunA17_Chr7g0272991 99.615 260 1 0 1 260 1 260 0.0 537
MsaG040647 MtrunA17_Chr1g0191681 83.539 243 36 1 1 243 1 239 3.62e-140 394
MsaG040647 MtrunA17_Chr2g0310741 55.785 242 92 7 12 247 15 247 9.87e-76 231
MsaG040647 MtrunA17_Chr3g0132191 66.038 159 39 4 83 238 37 183 1.24e-62 196
MsaG040647 MtrunA17_Chr2g0288481 49.468 188 70 8 82 259 66 238 6.82e-53 172
MsaG040647 MtrunA17_Chr2g0318881 59.770 87 34 1 100 185 21 107 1.64e-31 112
MsaG040647 MtrunA17_Chr2g0318921 61.446 83 31 1 100 181 21 103 6.70e-31 111
MsaG040647 MtrunA17_Chr8g0376351 61.333 75 28 1 119 192 1 75 2.16e-27 101
MsaG040647 MtrunA17_Chr3g0081161 39.744 78 47 0 102 179 9 86 7.89e-12 63.9
MsaG040647 MtrunA17_Chr8g0354151 37.179 78 49 0 102 179 9 86 1.47e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040647 AT1G08970.3 62.500 248 63 8 1 247 1 219 4.92e-88 261
MsaG040647 AT1G08970.4 62.500 248 63 8 1 247 1 219 4.92e-88 261
MsaG040647 AT1G08970.2 62.500 248 63 8 1 247 1 219 4.92e-88 261
MsaG040647 AT1G08970.1 62.500 248 63 8 1 247 1 219 4.92e-88 261
MsaG040647 AT1G54830.2 63.636 242 56 5 16 256 5 215 2.92e-87 259
MsaG040647 AT1G54830.3 63.636 242 56 5 16 256 5 215 2.92e-87 259
MsaG040647 AT1G54830.1 63.636 242 56 5 16 256 5 215 2.92e-87 259
MsaG040647 AT3G48590.1 68.790 157 44 3 83 238 47 199 1.76e-70 216
MsaG040647 AT5G63470.2 68.987 158 45 4 83 238 60 215 2.07e-67 209
MsaG040647 AT5G63470.1 68.987 158 45 4 83 238 60 215 2.07e-67 209
MsaG040647 AT1G56170.1 75.758 132 25 3 80 209 55 181 1.35e-66 205
MsaG040647 AT1G56170.2 75.758 132 25 3 80 209 55 181 1.35e-66 205
MsaG040647 AT5G50480.1 49.123 171 63 5 79 248 35 182 2.74e-46 154
MsaG040647 AT5G27910.1 45.349 172 72 8 77 248 15 164 4.68e-39 134
MsaG040647 AT5G50490.1 38.889 180 96 4 70 249 8 173 1.71e-34 123
MsaG040647 AT5G50470.1 39.560 182 71 8 79 251 44 195 9.78e-31 114
MsaG040647 AT5G38140.1 43.269 104 55 2 76 178 44 144 1.41e-25 100
MsaG040647 AT3G12480.1 37.179 78 49 0 102 179 9 86 1.30e-11 63.9

Find 92 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGCCAGCACTTCATCTTTC+AGG 0.158704 7:+102394124 None:intergenic
GTCATTTGGTTTGGCTGATA+TGG 0.158964 7:+102394588 None:intergenic
GACTGATATCTTTGATTTCC+TGG 0.246183 7:-102394169 MsaT040647.1:CDS
TCAACCTGCTGGAGCTCAGC+TGG 0.263146 7:-102394514 MsaT040647.1:CDS
GGGGCCCCAGTCATTTGGTT+TGG 0.316348 7:+102394579 None:intergenic
GGAGATGGTGGTCGCTGTTC+CGG 0.343092 7:+102393916 None:intergenic
GGCTGCTGAGCATACATGTT+TGG 0.345011 7:+102393976 None:intergenic
GCCTCCCAAGTTGGAACTGC+TGG 0.356093 7:-102394027 MsaT040647.1:CDS
GATCCGTTGTTACATCAGTT+GGG 0.366704 7:-102394554 MsaT040647.1:CDS
ATCCTGGGGCCCCAGTCATT+TGG 0.379289 7:+102394574 None:intergenic
TCATTTGGTTTGGCTGATAT+GGG 0.380613 7:+102394589 None:intergenic
ACTGATGTAACAACGGATCC+TGG 0.389880 7:+102394558 None:intergenic
TGGAACTGCTGGTGTCATAA+TGG 0.411463 7:-102394016 MsaT040647.1:CDS
CACAACCAGAATCCGCAAAT+GGG 0.411828 7:-102394651 MsaT040647.1:CDS
AGAGGAACAATGCCTGTTGC+TGG 0.417994 7:-102394093 MsaT040647.1:CDS
GGATCCGTTGTTACATCAGT+TGG 0.426256 7:-102394555 MsaT040647.1:CDS
GCTGCTGAGCATACATGTTT+GGG 0.435445 7:+102393977 None:intergenic
CATCTCAGCATCTAGTGATC+TGG 0.437549 7:+102393895 None:intergenic
AGCAACAGCTGCAATCCTTC+TGG 0.445281 7:-102394437 MsaT040647.1:CDS
CAGTGTGGTTCCATGAGCGC+AGG 0.449372 7:+102394247 None:intergenic
ACAAATGTGGCCACAGCCTC+CGG 0.450073 7:-102393935 MsaT040647.1:CDS
GCACAACCAGAATCCGCAAA+TGG 0.451270 7:-102394652 MsaT040647.1:CDS
CAAGAACCACAGCCTTCCTC+TGG 0.452736 7:-102394376 MsaT040647.1:CDS
GCATCAGCAGGACCAGCAAC+AGG 0.455014 7:+102394081 None:intergenic
GTTGCTGCTGTTGCTGCTGA+TGG 0.455992 7:+102394463 None:intergenic
GGCCTGTGAGATGTTCATAT+TGG 0.456864 7:-102394277 MsaT040647.1:CDS
TGGAGTTAACCCTGCGCTCA+TGG 0.458619 7:-102394257 MsaT040647.1:CDS
CAGTCCACTGGTCAACCTGC+TGG 0.464075 7:-102394525 MsaT040647.1:CDS
CACATTTGTGGTGCCATGTA+GGG 0.465255 7:+102393949 None:intergenic
CTGATGTAACAACGGATCCT+GGG 0.469388 7:+102394559 None:intergenic
CTGGTACTGGTTTGACCAGA+AGG 0.471679 7:+102394422 None:intergenic
CAACCTGCTGGAGCTCAGCT+GGG 0.476224 7:-102394513 MsaT040647.1:CDS
TGACACCAGCAGTTCCAACT+TGG 0.478083 7:+102394022 None:intergenic
GGAACTGCTGGTGTCATAAT+GGG 0.479046 7:-102394015 MsaT040647.1:CDS
TTGTGGTGCCATGTAGGGAT+GGG 0.484954 7:+102393954 None:intergenic
AACCAAATGACTGGGGCCCC+AGG 0.486456 7:-102394576 MsaT040647.1:CDS
TTTGTGGTGCCATGTAGGGA+TGG 0.486986 7:+102393953 None:intergenic
GGAGGCTGTGGCCACATTTG+TGG 0.486993 7:+102393937 None:intergenic
GCAACAGGCATTGTTCCTCT+TGG 0.487666 7:+102394096 None:intergenic
ACCACACTGAAGAGAACAAA+AGG 0.492883 7:-102394233 MsaT040647.1:CDS
CCACATTTGTGGTGCCATGT+AGG 0.497501 7:+102393948 None:intergenic
TACATGTTTGGGTCCATCAC+AGG 0.504424 7:+102393988 None:intergenic
TATCAGCCAAACCAAATGAC+TGG 0.504884 7:-102394585 MsaT040647.1:CDS
CCTCAGCATGCCTCCCAAGT+TGG 0.514710 7:-102394036 MsaT040647.1:CDS
TCTTGATCCTTGCCAGAGGA+AGG 0.515769 7:+102394364 None:intergenic
GTTGCTGCTGATGGATATGC+TGG 0.517658 7:+102394472 None:intergenic
TGACCCAGCTGAGCTCCAGC+AGG 0.517937 7:+102394510 None:intergenic
CCAGTACCAGGAAATTGAAA+AGG 0.518655 7:-102394409 MsaT040647.1:CDS
CTTCTGGTCAAACCAGTACC+AGG 0.521956 7:-102394421 MsaT040647.1:CDS
ATCCGTTGTTACATCAGTTG+GGG 0.531831 7:-102394553 MsaT040647.1:CDS
GGTCGCTGTTCCGGAGGCTG+TGG 0.539229 7:+102393925 None:intergenic
GGACCTGAAAGATGAAGTGC+TGG 0.542953 7:-102394127 MsaT040647.1:CDS
TGTGGTGCCATGTAGGGATG+GGG 0.546062 7:+102393955 None:intergenic
ACTTGGGAGGCATGCTGAGG+TGG 0.548128 7:+102394039 None:intergenic
ATCAGCCAAACCAAATGACT+GGG 0.550264 7:-102394584 MsaT040647.1:CDS
GACACCAGCAGTTCCAACTT+GGG 0.552393 7:+102394023 None:intergenic
AAGCACCTGTCATATTTGCA+AGG 0.553287 7:-102394299 MsaT040647.1:CDS
CAGTAAGGAAGAGCATCAGC+AGG 0.560205 7:+102394069 None:intergenic
CAGGCCCTTGCAAATATGAC+AGG 0.560856 7:+102394294 None:intergenic
TCAGCAGCCCCATCCCTACA+TGG 0.562305 7:-102393962 MsaT040647.1:CDS
TCCTTGCCAGAGGAAGGCTG+TGG 0.564697 7:+102394370 None:intergenic
CAAAACAGAATGGATCATCA+AGG 0.570283 7:-102394675 None:intergenic
AGCATCTAGTGATCTGGAGA+TGG 0.574668 7:+102393901 None:intergenic
ATATTGCTGCTGCAATCACT+AGG 0.575052 7:-102394191 MsaT040647.1:CDS
GAAGATCATGAAGGCTGATG+AGG 0.575398 7:-102394343 MsaT040647.1:CDS
TGAGGTGGCATGTAGCAGTA+AGG 0.584291 7:+102394054 None:intergenic
ACCACAGCCTTCCTCTGGCA+AGG 0.585880 7:-102394371 MsaT040647.1:CDS
AGCTCCAGCAGGTTGACCAG+TGG 0.593284 7:+102394521 None:intergenic
CATAATGGGAAAGCCTGTGA+TGG 0.593370 7:-102394001 MsaT040647.1:CDS
CACGAGGCACAATGTCAACC+AGG 0.593690 7:+102394151 None:intergenic
ACAACCAGAATCCGCAAATG+GGG 0.594889 7:-102394650 MsaT040647.1:CDS
ATCTAGTGATCTGGAGATGG+TGG 0.605869 7:+102393904 None:intergenic
CTCCAATATGAACATCTCAC+AGG 0.609517 7:+102394275 None:intergenic
TGATATGGGTTAGATCCGTA+CGG 0.617785 7:+102394603 None:intergenic
AGCGGCAGTCAAATGCCGTA+CGG 0.619913 7:-102394618 MsaT040647.1:CDS
TGATGTAACAACGGATCCTG+GGG 0.620797 7:+102394560 None:intergenic
AGCACCTGTCATATTTGCAA+GGG 0.622434 7:-102394298 MsaT040647.1:CDS
ATCTTCTTGATCCTTGCCAG+AGG 0.624577 7:+102394360 None:intergenic
AAAACAGAATGGATCATCAA+GGG 0.625548 7:-102394674 None:intergenic
ACCAGCAGTTCCAACTTGGG+AGG 0.637100 7:+102394026 None:intergenic
AGTGTGGTTCCATGAGCGCA+GGG 0.637592 7:+102394248 None:intergenic
CCTACATGGCACCACAAATG+TGG 0.644640 7:-102393948 MsaT040647.1:CDS
GATGGTGGTCGCTGTTCCGG+AGG 0.649506 7:+102393919 None:intergenic
CCAACTTGGGAGGCATGCTG+AGG 0.657795 7:+102394036 None:intergenic
TCATCTTTCAGGTCCTCACG+AGG 0.665344 7:+102394135 None:intergenic
AAGGATCAAGAAGATCATGA+AGG 0.667741 7:-102394352 MsaT040647.1:CDS
TCCGTTGTTACATCAGTTGG+GGG 0.670764 7:-102394552 MsaT040647.1:CDS
GGTTGACATTGTGCCTCGTG+AGG 0.672349 7:-102394148 MsaT040647.1:CDS
CAACCAGAATCCGCAAATGG+GGG 0.676007 7:-102394649 MsaT040647.1:CDS
ACACTGAAGAGAACAAAAGG+AGG 0.682027 7:-102394230 MsaT040647.1:CDS
GTGCTGGCTTCAATTCCAAG+AGG 0.714242 7:-102394111 MsaT040647.1:CDS
TCAGCCAAACCAAATGACTG+GGG 0.740826 7:-102394583 MsaT040647.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 102393906 102394688 102393906 ID=MsaG040647
Chr7 mRNA 102393906 102394688 102393906 ID=MsaT040647.1;Parent=MsaG040647
Chr7 exon 102393906 102394688 102393906 ID=MsaT040647.1.exon1;Parent=MsaT040647.1
Chr7 CDS 102393906 102394688 102393906 ID=cds.MsaT040647.1;Parent=MsaT040647.1
Gene Sequence

>MsaT040647.1

ATGGATCATCAAGGGCACAACCAGAATCCGCAAATGGGGGTTGTCGGTAGCGGCAGTCAAATGCCGTACGGATCTAACCCATATCAGCCAAACCAAATGACTGGGGCCCCAGGATCCGTTGTTACATCAGTTGGGGGCATGCAGTCCACTGGTCAACCTGCTGGAGCTCAGCTGGGTCAGCATCAACTTGCTTACCAGCATATCCATCAGCAGCAACAGCAGCAACTTCAGCAACAGCTGCAATCCTTCTGGTCAAACCAGTACCAGGAAATTGAAAAGGTTACTGATTTCAAGAACCACAGCCTTCCTCTGGCAAGGATCAAGAAGATCATGAAGGCTGATGAGGATGTTAGAATGATATCAGCTGAAGCACCTGTCATATTTGCAAGGGCCTGTGAGATGTTCATATTGGAGTTAACCCTGCGCTCATGGAACCACACTGAAGAGAACAAAAGGAGGACACTTCAGAAGAATGATATTGCTGCTGCAATCACTAGGACTGATATCTTTGATTTCCTGGTTGACATTGTGCCTCGTGAGGACCTGAAAGATGAAGTGCTGGCTTCAATTCCAAGAGGAACAATGCCTGTTGCTGGTCCTGCTGATGCTCTTCCTTACTGCTACATGCCACCTCAGCATGCCTCCCAAGTTGGAACTGCTGGTGTCATAATGGGAAAGCCTGTGATGGACCCAAACATGTATGCTCAGCAGCCCCATCCCTACATGGCACCACAAATGTGGCCACAGCCTCCGGAACAGCGACCACCATCTCCAGATCACTAG
Protein sequence

>MsaT040647.1

MDHQGHNQNPQMGVVGSGSQMPYGSNPYQPNQMTGAPGSVVTSVGGMQSTGQPAGAQLGQHQLAYQHIHQQQQQQLQQQLQSFWSNQYQEIEKVTDFKNHSLPLARIKKIMKADEDVRMISAEAPVIFARACEMFILELTLRSWNHTEENKRRTLQKNDIAAAITRTDIFDFLVDIVPREDLKDEVLASIPRGTMPVAGPADALPYCYMPPQHASQVGTAGVIMGKPVMDPNMYAQQPHPYMAPQMWPQPPEQRPPSPDH*