AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG046038

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046038 MtrunA17_Chr4g0070591 98.916 369 3 1 1 369 1 368 0.0 754
MsaG046038 MtrunA17_Chr2g0300511 61.680 381 103 12 5 369 3 356 5.58e-140 402
MsaG046038 MtrunA17_Chr8g0343881 42.582 364 157 15 1 338 1 338 5.18e-69 220
MsaG046038 MtrunA17_Chr4g0021261 39.266 354 147 14 9 352 25 320 2.05e-55 185
MsaG046038 MtrunA17_Chr5g0409471 60.550 109 31 2 9 117 16 112 1.01e-39 143
MsaG046038 MtrunA17_Chr1g0152191 56.897 116 44 2 7 117 142 256 1.46e-39 148
MsaG046038 MtrunA17_Chr7g0265931 53.383 133 41 4 6 124 68 193 5.58e-37 137
MsaG046038 MtrunA17_Chr3g0127641 48.739 119 42 4 9 127 112 211 3.21e-27 112
MsaG046038 MtrunA17_Chr8g0351521 45.536 112 47 3 6 117 51 148 3.71e-21 94.4
MsaG046038 MtrunA17_Chr8g0351521 43.750 80 34 2 73 152 302 370 3.51e-13 70.5
MsaG046038 MtrunA17_Chr8g0351291 64.103 39 14 0 73 111 51 89 1.27e-12 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046038 AT3G13960.1 71.053 114 27 3 7 117 14 124 4.20e-52 178
MsaG046038 AT2G06200.2 66.667 120 29 2 7 115 43 162 3.57e-48 164
MsaG046038 AT2G06200.1 66.667 120 29 2 7 115 4 123 4.67e-48 163
MsaG046038 AT4G37740.1 55.118 127 52 3 9 134 164 286 3.63e-41 152
MsaG046038 AT2G36400.1 57.377 122 43 3 10 125 77 195 6.80e-37 138
MsaG046038 AT2G22840.1 57.143 112 44 2 7 117 131 239 1.32e-34 134
MsaG046038 AT3G52910.1 53.390 118 39 3 10 117 83 194 3.94e-33 127
MsaG046038 AT5G53660.1 50.000 110 38 2 8 117 58 150 6.46e-27 110
MsaG046038 AT2G06200.3 92.157 51 2 1 67 115 1 51 5.69e-26 102
MsaG046038 AT4G24150.3 42.149 121 64 2 2 117 104 223 7.87e-23 99.4
MsaG046038 AT4G24150.2 42.149 121 64 2 2 117 142 261 1.35e-22 99.4
MsaG046038 AT4G24150.1 36.986 146 61 3 2 117 142 286 8.86e-21 94.0
MsaG046038 AT2G45480.2 41.441 111 64 1 5 114 19 129 1.75e-18 85.5
MsaG046038 AT2G45480.1 41.441 111 64 1 5 114 17 127 6.67e-18 85.1
MsaG046038 AT2G45480.1 41.935 93 42 3 70 155 301 388 8.86e-13 69.7
MsaG046038 AT2G45480.3 41.441 111 64 1 5 114 19 129 6.99e-18 85.1
MsaG046038 AT2G45480.3 41.935 93 42 3 70 155 303 390 9.16e-13 69.7

Find 80 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCATGAGTTTCTGCTGCTTT+TGG 0.148849 8:-79806254 None:intergenic
TGAAGGAACAGGTATGTTTA+TGG 0.231611 8:+79805917 MsaT046038.1:intron
TGCCACTGAGTTGGAGTAAA+AGG 0.276188 8:-79804836 None:intergenic
CTTCTGCACCTCCCTGGCTC+TGG 0.278943 8:-79805124 None:intergenic
CCCTTGTTTCTTGACAATAC+TGG 0.290985 8:+79805493 MsaT046038.1:CDS
CAGAAACTCATGGCTTGATT+TGG 0.299180 8:+79806264 MsaT046038.1:CDS
GCTTTCTTCACTGAACCTTC+TGG 0.302685 8:+79805965 MsaT046038.1:CDS
CTTTCACAGTACTTTGAATC+TGG 0.319625 8:-79805187 None:intergenic
AAAAGAGGAAGAGGAGCTTA+TGG 0.356828 8:-79806047 None:intergenic
CTTCTTCAATGGATGATTCA+TGG 0.368355 8:+79806008 MsaT046038.1:CDS
TTCTGCACCTCCCTGGCTCT+GGG 0.368474 8:-79805123 None:intergenic
ATCTACAAATACATGGCTTC+TGG 0.368517 8:+79804881 MsaT046038.1:CDS
TTGTCTTGAAATGAGAAGTT+AGG 0.391585 8:-79805463 None:intergenic
AGAGGAAAGGGTGGTTAAGA+TGG 0.391821 8:-79805417 None:intergenic
GAACTATTTACCAATGGGAT+TGG 0.400450 8:+79805087 MsaT046038.1:CDS
TTTAAACAGAGAAATTGTTC+TGG 0.401538 8:+79806067 MsaT046038.1:CDS
TTCATCGTTTCTTTGATGAA+TGG 0.411092 8:+79806227 MsaT046038.1:CDS
AACTATTTACCAATGGGATT+GGG 0.420553 8:+79805088 MsaT046038.1:CDS
CCATTTACCTCGTTGGTTTG+TGG 0.423824 8:-79806359 None:intergenic
GCCTTGAGGATGGAGGGTTA+TGG 0.442680 8:-79805441 None:intergenic
AAGTTTATCAGCTTCTTCAA+TGG 0.445043 8:+79805997 MsaT046038.1:CDS
GAGGGTTATGGTAGAGGAAA+GGG 0.446918 8:-79805429 None:intergenic
TTGATAGTGAGTAGAAGATC+AGG 0.446923 8:-79804917 None:intergenic
AAGCATAAGAAGAGTGTTGA+GGG 0.452542 8:-79805390 None:intergenic
TCTGTTCTTCTGCACCTCCC+TGG 0.454328 8:-79805130 None:intergenic
ACAATTTCTCTGTTTAAAAG+AGG 0.457057 8:-79806062 None:intergenic
GAGGAAAGGGTGGTTAAGAT+GGG 0.457253 8:-79805416 None:intergenic
GAGTAGAAGATCAGGAGGAA+TGG 0.465599 8:-79804909 None:intergenic
GTAAGAGTACTCATTGTCAT+TGG 0.465700 8:-79806095 None:intergenic
CTTCCACAGGCTTTCTTGAA+CGG 0.472599 8:-79805231 None:intergenic
GGATGGAACTATTTACCAAT+GGG 0.479254 8:+79805082 MsaT046038.1:CDS
CAATGATGAATGGAAGAAAC+AGG 0.479723 8:+79804810 None:intergenic
GAAGAACAGATGGAAAGAAA+TGG 0.480263 8:+79805143 MsaT046038.1:CDS
ATAACAACAACACTGATTGC+AGG 0.480287 8:+79805530 MsaT046038.1:CDS
AAGAAGAGTGTTGAGGGTAA+TGG 0.482978 8:-79805384 None:intergenic
GATCAAGGTTGTTACATCTC+AGG 0.490399 8:+79806154 MsaT046038.1:CDS
TCTCTGTTTAAAAGAGGAAG+AGG 0.498513 8:-79806056 None:intergenic
TAACAAACAACAATGATGAA+TGG 0.501615 8:+79804800 None:intergenic
AGGATGGAGGGTTATGGTAG+AGG 0.503413 8:-79805435 None:intergenic
GTGTGGTGCATGCAGTTGGA+TGG 0.510680 8:+79805065 MsaT046038.1:intron
TCAAGCTCTTGCCACTGAGT+TGG 0.513392 8:-79804845 None:intergenic
TTATGGACTGAAAGAGGAGG+TGG 0.522907 8:+79805934 MsaT046038.1:CDS
GAAGAGGAGCTTATGGTAAG+TGG 0.526833 8:-79806040 None:intergenic
AAGATTGTTGAAGTAGCAGC+AGG 0.534940 8:-79805283 None:intergenic
ATCATGAGAAGATGTAGGAA+TGG 0.536076 8:-79806320 None:intergenic
ACCAGTATTGTCAAGAAACA+AGG 0.541001 8:-79805494 None:intergenic
AAACAACCACAGCAAGATCA+AGG 0.541674 8:+79806139 MsaT046038.1:CDS
AGAGAAACCATTTACCTCGT+TGG 0.542197 8:-79806366 None:intergenic
GTGAAATCATGAGAAGATGT+AGG 0.543173 8:-79806325 None:intergenic
GTGAAAGGCACATGCATAGA+GGG 0.547205 8:+79805203 MsaT046038.1:CDS
GAAGCATAAGAAGAGTGTTG+AGG 0.548399 8:-79805391 None:intergenic
GGAGGGTTATGGTAGAGGAA+AGG 0.556801 8:-79805430 None:intergenic
GAACAGATGGAAAGAAATGG+AGG 0.559737 8:+79805146 MsaT046038.1:CDS
TGGATGGAACTATTTACCAA+TGG 0.564553 8:+79805081 MsaT046038.1:CDS
GAAGAAACATTCATGAAACA+TGG 0.569282 8:+79806181 MsaT046038.1:CDS
ATAGTGAGTAGAAGATCAGG+AGG 0.571348 8:-79804914 None:intergenic
CAGATTCAAAGTACTGTGAA+AGG 0.571794 8:+79805188 MsaT046038.1:CDS
GGGAGGTGCAGAAGAACAGA+TGG 0.577454 8:+79805133 MsaT046038.1:CDS
AAACTTCTTATAGTTCCAGA+AGG 0.579842 8:-79805980 None:intergenic
AAGTTAGGCCTTGAGGATGG+AGG 0.587194 8:-79805448 None:intergenic
ACCATAACCCTCCATCCTCA+AGG 0.592083 8:+79805440 MsaT046038.1:CDS
AAATGAGAAGTTAGGCCTTG+AGG 0.594153 8:-79805455 None:intergenic
AGTTAGGCCTTGAGGATGGA+GGG 0.597805 8:-79805447 None:intergenic
GTATGTTTATGGACTGAAAG+AGG 0.601366 8:+79805928 MsaT046038.1:CDS
AAGAAACATTCATGAAACAT+GGG 0.603745 8:+79806182 MsaT046038.1:CDS
GAGAAGTTAGGCCTTGAGGA+TGG 0.604526 8:-79805451 None:intergenic
CCAAAAGCAGCAGAAACTCA+TGG 0.605608 8:+79806254 MsaT046038.1:CDS
AGCTCTTATCTACAAATACA+TGG 0.606523 8:+79804874 MsaT046038.1:CDS
AGTGTTGTTGTTATTGTGAG+AGG 0.610925 8:-79805521 None:intergenic
GGAGATTGAAAGCTGAGTGG+TGG 0.613550 8:-79806299 None:intergenic
TAACAACCTTGATCTTGCTG+TGG 0.626299 8:-79806145 None:intergenic
TGTGAAAGGCACATGCATAG+AGG 0.626931 8:+79805202 MsaT046038.1:CDS
AAACCGTTCAAGAAAGCCTG+TGG 0.641388 8:+79805228 MsaT046038.1:CDS
TGTTTATGGACTGAAAGAGG+AGG 0.650765 8:+79805931 MsaT046038.1:CDS
CCAGTATTGTCAAGAAACAA+GGG 0.652005 8:-79805493 None:intergenic
AAATAGACCCAGAGCCAGGG+AGG 0.659120 8:+79805116 MsaT046038.1:CDS
GGTTATGGTAGAGGAAAGGG+TGG 0.659870 8:-79805426 None:intergenic
TTTAGTTCCACAAACCAACG+AGG 0.729736 8:+79806352 MsaT046038.1:CDS
AATGGAGATTGAAAGCTGAG+TGG 0.781428 8:-79806302 None:intergenic
TTACAGTGTTGAGACTGATG+AGG 0.793602 8:-79804971 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 79804812 79806784 79804812 ID=MsaG046038
Chr8 mRNA 79804812 79806784 79804812 ID=MsaT046038.1;Parent=MsaG046038
Chr8 exon 79804812 79804989 79804812 ID=MsaT046038.1.exon1;Parent=MsaT046038.1
Chr8 CDS 79804812 79804989 79804812 ID=cds.MsaT046038.1;Parent=MsaT046038.1
Chr8 exon 79805080 79805551 79805080 ID=MsaT046038.1.exon2;Parent=MsaT046038.1
Chr8 CDS 79805080 79805551 79805080 ID=cds.MsaT046038.1;Parent=MsaT046038.1
Chr8 exon 79805922 79806373 79805922 ID=MsaT046038.1.exon3;Parent=MsaT046038.1
Chr8 CDS 79805922 79806373 79805922 ID=cds.MsaT046038.1;Parent=MsaT046038.1
Chr8 exon 79806777 79806784 79806777 ID=MsaT046038.1.exon4;Parent=MsaT046038.1
Chr8 CDS 79806777 79806784 79806777 ID=cds.MsaT046038.1;Parent=MsaT046038.1
Gene Sequence

>MsaT046038.1

ATGATGAATGGAAGAAACAGGTATCCTTTTACTCCAACTCAGTGGCAAGAGCTTGAACATCAAGCTCTTATCTACAAATACATGGCTTCTGGTATTTCCATTCCTCCTGATCTTCTACTCACTATCAAAAGAAGCTACTTAGACTCTTCAAGACTCTCACCTCATCAGTCTCAACACTTTGGATGGAACTATTTACCAATGGGATTGGGAAGAAAAATAGACCCAGAGCCAGGGAGGTGCAGAAGAACAGATGGAAAGAAATGGAGGTGTTCAAAAGAAGCATATCCAGATTCAAAGTACTGTGAAAGGCACATGCATAGAGGGAAAAACCGTTCAAGAAAGCCTGTGGAAGTTTTGAAAACAACAACAAACACAGATGCTCCTGCTGCTACTTCAACAATCTTATCAATCACTAAAAATAGTAGTCTTGATTCTGATCATAACACTGCAGCACTAACATCAACAACTCATGACACTAATTACCATTACCCTCAACACTCTTCTTATGCTTCTTCCCATCTTAACCACCCTTTCCTCTACCATAACCCTCCATCCTCAAGGCCTAACTTCTCATTTCAAGACAATAGTGCTCCCTTGTTTCTTGACAATACTGGTTCTTCCTCTCACAATAACAACAACACTGATTGCAGGAACAGGTATGTTTATGGACTGAAAGAGGAGGTGGATGAACATGCTTTCTTCACTGAACCTTCTGGAACTATAAGAAGTTTATCAGCTTCTTCAATGGATGATTCATGGCAACTCACACCACTTACCATAAGCTCCTCTTCCTCTTTTAAACAGAGAAATTGTTCTGGTTTATCCAATGACAATGAGTACTCTTACTTGCAACTTGACAACAACTCAAAACAACCACAGCAAGATCAAGGTTGTTACATCTCAGGTAGTGAAGAAACATTCATGAAACATGGGAAAGAAGAACCTCAGAAGATTTTTCATCGTTTCTTTGATGAATGGCCACCCAAAAGCAGCAGAAACTCATGGCTTGATTTGGATGATAAATCATCCACCACTCAGCTTTCAATCTCCATTCCTACATCTTCTCATGATTTCACAACTTTTAGTTCCACAAACCAACGAGATGGTTGA
Protein sequence

>MsaT046038.1

MMNGRNRYPFTPTQWQELEHQALIYKYMASGISIPPDLLLTIKRSYLDSSRLSPHQSQHFGWNYLPMGLGRKIDPEPGRCRRTDGKKWRCSKEAYPDSKYCERHMHRGKNRSRKPVEVLKTTTNTDAPAATSTILSITKNSSLDSDHNTAALTSTTHDTNYHYPQHSSYASSHLNHPFLYHNPPSSRPNFSFQDNSAPLFLDNTGSSSHNNNNTDCRNRYVYGLKEEVDEHAFFTEPSGTIRSLSASSMDDSWQLTPLTISSSSSFKQRNCSGLSNDNEYSYLQLDNNSKQPQQDQGCYISGSEETFMKHGKEEPQKIFHRFFDEWPPKSSRNSWLDLDDKSSTTQLSISIPTSSHDFTTFSSTNQRDG*