AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480018569.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018569.01.T01 MTR_4g014460 94.954 218 8 1 1 218 1 215 6.56e-151 418
MsG0480018569.01.T01 MTR_7g070050 65.241 187 57 3 36 215 1 186 3.37e-76 228
MsG0480018569.01.T01 MTR_5g083270 63.095 168 57 3 44 209 41 205 4.47e-70 213
MsG0480018569.01.T01 MTR_3g071740 61.988 171 60 4 47 216 64 230 5.10e-69 211
MsG0480018569.01.T01 MTR_1g028380 46.448 183 93 2 31 213 5 182 2.87e-55 174
MsG0480018569.01.T01 MTR_5g030500 53.659 164 72 2 49 208 44 207 6.63e-55 174
MsG0480018569.01.T01 MTR_8g027805 48.171 164 84 1 49 212 18 180 4.90e-54 171
MsG0480018569.01.T01 MTR_1g016480 52.500 160 72 3 49 206 39 196 5.08e-53 169
MsG0480018569.01.T01 MTR_3g090980 43.956 182 97 2 32 213 8 184 1.19e-52 168
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018569.01.T01 AT2G38310 67.052 173 53 2 47 218 37 206 4.89e-73 220
MsG0480018569.01.T01 AT5G05440 64.815 162 53 2 45 205 41 199 2.66e-70 213
MsG0480018569.01.T01 AT2G40330 59.064 171 65 3 45 211 44 213 4.10e-66 203
MsG0480018569.01.T01 AT5G53160 48.485 165 84 1 49 213 19 182 3.89e-56 177
MsG0480018569.01.T01 AT1G01360 47.531 162 84 1 52 213 24 184 1.50e-55 175
MsG0480018569.01.T01 AT4G01026 49.068 161 81 1 53 213 27 186 1.19e-53 171
MsG0480018569.01.T01 AT2G26040 49.398 166 82 1 43 206 16 181 1.74e-53 170
MsG0480018569.01.T01 AT4G27920 46.667 165 88 0 49 213 14 178 5.35e-52 166
MsG0480018569.01.T01 AT4G17870 48.810 168 85 1 45 211 13 180 7.46e-52 166
MsG0480018569.01.T01 AT1G73000 46.199 171 82 4 43 203 31 201 3.79e-44 147
MsG0480018569.01.T01 AT5G46790 49.412 170 80 3 45 209 40 208 9.88e-44 146
MsG0480018569.01.T01 AT5G46790 49.412 170 80 3 45 209 40 208 9.88e-44 146
MsG0480018569.01.T01 AT5G45860 52.055 146 69 1 64 209 12 156 4.80e-42 140
MsG0480018569.01.T01 AT5G45870 50.676 148 71 1 64 211 12 157 1.06e-41 139
MsG0480018569.01.T01 AT4G18620 45.963 161 80 2 58 211 4 164 2.48e-34 120
MsG0480018569.01.T01 AT5G53160 50.495 101 49 1 49 149 19 118 6.21e-32 114

Find 71 sgRNAs with CRISPR-Local

Find 79 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTGAAGACTTTGGTGGATT+TGG 0.227133 4:+6766693 None:intergenic
CGTTCGGTGCTGCGTGCAGC+AGG 0.323719 4:+6766345 None:intergenic
GGACGACCGCCGAGCATAAT+TGG 0.334740 4:+6766520 None:intergenic
TGATAGTGGGCTATAGTATT+AGG 0.336898 4:+6766564 None:intergenic
CAGCAGGGAGGCCAGATATA+AGG 0.373259 4:+6766361 None:intergenic
TGATGGAGGCGGTTGTCTCT+TGG 0.388404 4:+6766499 None:intergenic
TCCACAGAGGGTGACTGTTC+CGG 0.392902 4:-6766222 MsG0480018569.01.T01:CDS
AGGGAGGTCAACCTTATATC+TGG 0.399072 4:-6766372 MsG0480018569.01.T01:CDS
CACTGACCAAACGGCGGTGA+TGG 0.428126 4:+6766482 None:intergenic
ATATTGAGTGTGTGTGATAG+TGG 0.451535 4:+6766550 None:intergenic
TTAGGAATGGTGTTGCTGAC+AGG 0.452557 4:+6766582 None:intergenic
GAAGACTTTGGTGGATTTGG+AGG 0.457214 4:+6766696 None:intergenic
CCGCCTCCATCACCGCCGTT+TGG 0.479222 4:-6766488 MsG0480018569.01.T01:CDS
ATCGAGGATCTCAAGGCGTT+CGG 0.483659 4:+6766329 None:intergenic
CGTTGGTGGCGACGGTGATG+TGG 0.489155 4:-6766403 MsG0480018569.01.T01:CDS
CTATGTGGTGGATATTCCTT+CGG 0.490303 4:-6766181 MsG0480018569.01.T01:CDS
GCGACGAACCACTGACCAAA+CGG 0.495755 4:+6766473 None:intergenic
GAGGTCGTGGTGGTTGGTGA+TGG 0.514354 4:+6766635 None:intergenic
GCCGTGGAGGTCGTGGTGGT+TGG 0.515521 4:+6766629 None:intergenic
AGTCTTCACTTCTCCTCCAC+AGG 0.523366 4:-6766680 MsG0480018569.01.T01:CDS
TGTTTGTTGATACAATTGTT+CGG 0.525160 4:-6766134 MsG0480018569.01.T01:CDS
CATCACCGCCGTTTGGTCAG+TGG 0.527329 4:-6766481 MsG0480018569.01.T01:CDS
AGGAGAAGTGAAGACTTTGG+TGG 0.533916 4:+6766687 None:intergenic
ACGGTGATGTGGGCACACTC+AGG 0.539446 4:-6766392 MsG0480018569.01.T01:CDS
CCAAACGGCGGTGATGGAGG+CGG 0.539681 4:+6766488 None:intergenic
TGTAACCTCGTTGGTGGCGA+CGG 0.546094 4:-6766411 MsG0480018569.01.T01:CDS
ATCAAGAGTTGTAACCTCGT+TGG 0.547255 4:-6766420 MsG0480018569.01.T01:CDS
GTTGGTGATGGTCGTAGTGG+TGG 0.548645 4:+6766647 None:intergenic
CGGTGATGTGGGCACACTCA+GGG 0.556265 4:-6766391 MsG0480018569.01.T01:CDS
GTTCGGTGCTGCGTGCAGCA+GGG 0.556567 4:+6766346 None:intergenic
CAACACTAAAACTGATGACA+TGG 0.557856 4:+6766298 None:intergenic
GATCCTCATCGAGGATCTCA+AGG 0.566346 4:+6766322 None:intergenic
AAGAGTTGTAACCTCGTTGG+TGG 0.571438 4:-6766417 MsG0480018569.01.T01:CDS
GGAACAGTCACCCTCTGTGG+AGG 0.574183 4:+6766224 None:intergenic
TGGTGGTGTGGTTGATCCTG+TGG 0.579437 4:+6766664 None:intergenic
TAGGAATGGTGTTGCTGACA+GGG 0.583805 4:+6766583 None:intergenic
TCCTTCGGAAAATACTAAAG+AGG 0.584494 4:-6766166 MsG0480018569.01.T01:CDS
ATCATCCGACCAATTATGCT+CGG 0.584649 4:-6766529 MsG0480018569.01.T01:CDS
TGACCAAACGGCGGTGATGG+AGG 0.585643 4:+6766485 None:intergenic
TGCTGACAGGGTTGATGAAG+AGG 0.594019 4:+6766595 None:intergenic
ACACTTCATCCCTCCACAGA+GGG 0.594198 4:-6766234 MsG0480018569.01.T01:CDS
CGGTTTGTGCAAGTGACTGA+AGG 0.594264 4:+6766106 None:intergenic
GCCGGAACAGTCACCCTCTG+TGG 0.599614 4:+6766221 None:intergenic
GGACTCAACTATCACCGTGC+CGG 0.603129 4:+6766203 None:intergenic
GAACAGTCACCCTCTGTGGA+GGG 0.606405 4:+6766225 None:intergenic
GACCGCCGAGCATAATTGGT+CGG 0.608055 4:+6766524 None:intergenic
GTGGGCTATAGTATTAGGAA+TGG 0.608376 4:+6766569 None:intergenic
GTTGGTGGCGACGGTGATGT+GGG 0.610157 4:-6766402 MsG0480018569.01.T01:CDS
CGAAGGAATATCCACCACAT+AGG 0.619850 4:+6766182 None:intergenic
TGGAGGAGAAGTGAAGACTT+TGG 0.627794 4:+6766684 None:intergenic
ACCAACCACCACGACCTCCA+CGG 0.628316 4:-6766630 MsG0480018569.01.T01:CDS
AGAGGGTGACTGTTCCGGCA+CGG 0.639448 4:-6766217 MsG0480018569.01.T01:CDS
GGAGGGATGAAGTGTAGTAA+CGG 0.646842 4:+6766242 None:intergenic
TGATGGTCGTAGTGGTGGTG+TGG 0.646910 4:+6766652 None:intergenic
GTGGTTGGTGATGGTCGTAG+TGG 0.657655 4:+6766644 None:intergenic
CGGTGCTGCGTGCAGCAGGG+AGG 0.659975 4:+6766349 None:intergenic
TATTGAGTGTGTGTGATAGT+GGG 0.661022 4:+6766551 None:intergenic
TGGTGTGGTTGATCCTGTGG+AGG 0.662950 4:+6766667 None:intergenic
GCTGACAGGGTTGATGAAGA+GGG 0.664187 4:+6766596 None:intergenic
GATGAAGTGTAGTAACGGAA+CGG 0.672049 4:+6766247 None:intergenic
ACGCCTTGAGATCCTCGATG+AGG 0.696994 4:-6766325 MsG0480018569.01.T01:CDS
TTTCGCCGTGGAGGTCGTGG+TGG 0.698954 4:+6766625 None:intergenic
ATCCGACCAATTATGCTCGG+CGG 0.704061 4:-6766526 MsG0480018569.01.T01:CDS
TTGCTGTGTAATGTTCTCTG+CGG 0.706407 4:+6766086 None:intergenic
GATAGTTGAGTCCTATGTGG+TGG 0.708119 4:-6766193 MsG0480018569.01.T01:CDS
GGTGATAGTTGAGTCCTATG+TGG 0.715010 4:-6766196 MsG0480018569.01.T01:CDS
TGATGTGGGCACACTCAGGG+AGG 0.725955 4:-6766388 MsG0480018569.01.T01:CDS
CATCACCGTCGCCACCAACG+AGG 0.726271 4:+6766406 None:intergenic
TACACTTCATCCCTCCACAG+AGG 0.732326 4:-6766235 MsG0480018569.01.T01:CDS
TGACATGGCGATCCTCATCG+AGG 0.742190 4:+6766313 None:intergenic
ACGAACCACTGACCAAACGG+CGG 0.744614 4:+6766476 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACTCTTGATGAAATTTTTGT+AGG + Chr4:6766333-6766352 None:intergenic 25.0%
!! TGTTTGTTGATACAATTGTT+CGG - Chr4:6766630-6766649 MsG0480018569.01.T01:CDS 25.0%
! ATGAAATTTTTGTAGGCTTG+TGG + Chr4:6766326-6766345 None:intergenic 30.0%
ATATTGAGTGTGTGTGATAG+TGG + Chr4:6766217-6766236 None:intergenic 35.0%
CAACACTAAAACTGATGACA+TGG + Chr4:6766469-6766488 None:intergenic 35.0%
TATTGAGTGTGTGTGATAGT+GGG + Chr4:6766216-6766235 None:intergenic 35.0%
TCCTTCGGAAAATACTAAAG+AGG - Chr4:6766598-6766617 MsG0480018569.01.T01:CDS 35.0%
! TCCTCTTTAGTATTTTCCGA+AGG + Chr4:6766602-6766621 None:intergenic 35.0%
!! ATCAGTTTTAGTGTTGTTGG+TGG - Chr4:6766473-6766492 MsG0480018569.01.T01:CDS 35.0%
!! GTCATCAGTTTTAGTGTTGT+TGG - Chr4:6766470-6766489 MsG0480018569.01.T01:CDS 35.0%
!! TGATAGTGGGCTATAGTATT+AGG + Chr4:6766203-6766222 None:intergenic 35.0%
ATCAAGAGTTGTAACCTCGT+TGG - Chr4:6766344-6766363 MsG0480018569.01.T01:CDS 40.0%
ATCATCCGACCAATTATGCT+CGG - Chr4:6766235-6766254 MsG0480018569.01.T01:CDS 40.0%
TTGCTGTGTAATGTTCTCTG+CGG + Chr4:6766681-6766700 None:intergenic 40.0%
! GATGAAGTGTAGTAACGGAA+CGG + Chr4:6766520-6766539 None:intergenic 40.0%
! GTGGGCTATAGTATTAGGAA+TGG + Chr4:6766198-6766217 None:intergenic 40.0%
!! AGTGAAGACTTTGGTGGATT+TGG + Chr4:6766074-6766093 None:intergenic 40.0%
!! CTATGTGGTGGATATTCCTT+CGG - Chr4:6766583-6766602 MsG0480018569.01.T01:CDS 40.0%
AAGAGTTGTAACCTCGTTGG+TGG - Chr4:6766347-6766366 MsG0480018569.01.T01:CDS 45.0%
AGGAGAAGTGAAGACTTTGG+TGG + Chr4:6766080-6766099 None:intergenic 45.0%
AGGGAGGTCAACCTTATATC+TGG - Chr4:6766392-6766411 MsG0480018569.01.T01:CDS 45.0%
CGAAGGAATATCCACCACAT+AGG + Chr4:6766585-6766604 None:intergenic 45.0%
GATAGTTGAGTCCTATGTGG+TGG - Chr4:6766571-6766590 MsG0480018569.01.T01:CDS 45.0%
GGAGGGATGAAGTGTAGTAA+CGG + Chr4:6766525-6766544 None:intergenic 45.0%
GGTGATAGTTGAGTCCTATG+TGG - Chr4:6766568-6766587 MsG0480018569.01.T01:CDS 45.0%
TGGAGGAGAAGTGAAGACTT+TGG + Chr4:6766083-6766102 None:intergenic 45.0%
!! GAAGACTTTGGTGGATTTGG+AGG + Chr4:6766071-6766090 None:intergenic 45.0%
!! TAGGAATGGTGTTGCTGACA+GGG + Chr4:6766184-6766203 None:intergenic 45.0%
!! TTAGGAATGGTGTTGCTGAC+AGG + Chr4:6766185-6766204 None:intergenic 45.0%
ACACTTCATCCCTCCACAGA+GGG - Chr4:6766530-6766549 MsG0480018569.01.T01:CDS 50.0%
AGTCTTCACTTCTCCTCCAC+AGG - Chr4:6766084-6766103 MsG0480018569.01.T01:CDS 50.0%
ATCCGACCAATTATGCTCGG+CGG - Chr4:6766238-6766257 MsG0480018569.01.T01:CDS 50.0%
CGGTTTGTGCAAGTGACTGA+AGG + Chr4:6766661-6766680 None:intergenic 50.0%
GATCCTCATCGAGGATCTCA+AGG + Chr4:6766445-6766464 None:intergenic 50.0%
TACACTTCATCCCTCCACAG+AGG - Chr4:6766529-6766548 MsG0480018569.01.T01:CDS 50.0%
! ATCGAGGATCTCAAGGCGTT+CGG + Chr4:6766438-6766457 None:intergenic 50.0%
!! GCTGACAGGGTTGATGAAGA+GGG + Chr4:6766171-6766190 None:intergenic 50.0%
!! TGCTGACAGGGTTGATGAAG+AGG + Chr4:6766172-6766191 None:intergenic 50.0%
ACGAACCACTGACCAAACGG+CGG + Chr4:6766291-6766310 None:intergenic 55.0%
ACGCCTTGAGATCCTCGATG+AGG - Chr4:6766439-6766458 MsG0480018569.01.T01:CDS 55.0%
CAGCAGGGAGGCCAGATATA+AGG + Chr4:6766406-6766425 None:intergenic 55.0%
GAACAGTCACCCTCTGTGGA+GGG + Chr4:6766542-6766561 None:intergenic 55.0%
GACCGCCGAGCATAATTGGT+CGG + Chr4:6766243-6766262 None:intergenic 55.0%
GCGACGAACCACTGACCAAA+CGG + Chr4:6766294-6766313 None:intergenic 55.0%
GGACTCAACTATCACCGTGC+CGG + Chr4:6766564-6766583 None:intergenic 55.0%
TCCACAGAGGGTGACTGTTC+CGG - Chr4:6766542-6766561 MsG0480018569.01.T01:CDS 55.0%
TGACATGGCGATCCTCATCG+AGG + Chr4:6766454-6766473 None:intergenic 55.0%
TGATGGAGGCGGTTGTCTCT+TGG + Chr4:6766268-6766287 None:intergenic 55.0%
TGGTGTGGTTGATCCTGTGG+AGG + Chr4:6766100-6766119 None:intergenic 55.0%
! TGATGGTCGTAGTGGTGGTG+TGG + Chr4:6766115-6766134 None:intergenic 55.0%
! TGGTGGTGTGGTTGATCCTG+TGG + Chr4:6766103-6766122 None:intergenic 55.0%
!! GTGGTTGGTGATGGTCGTAG+TGG + Chr4:6766123-6766142 None:intergenic 55.0%
!! GTTGGTGATGGTCGTAGTGG+TGG + Chr4:6766120-6766139 None:intergenic 55.0%
!! TGTAACCTCGTTGGTGGCGA+CGG - Chr4:6766353-6766372 MsG0480018569.01.T01:CDS 55.0%
!!! AGAGGGTGTTGTTTTCGCCG+TGG + Chr4:6766154-6766173 None:intergenic 55.0%
ACCAACCACCACGACCTCCA+CGG - Chr4:6766134-6766153 MsG0480018569.01.T01:CDS 60.0%
ACGGTGATGTGGGCACACTC+AGG - Chr4:6766372-6766391 MsG0480018569.01.T01:CDS 60.0%
AGAGGGTGACTGTTCCGGCA+CGG - Chr4:6766547-6766566 MsG0480018569.01.T01:CDS 60.0%
CACTGACCAAACGGCGGTGA+TGG + Chr4:6766285-6766304 None:intergenic 60.0%
CATCACCGCCGTTTGGTCAG+TGG - Chr4:6766283-6766302 MsG0480018569.01.T01:CDS 60.0%
CGGTGATGTGGGCACACTCA+GGG - Chr4:6766373-6766392 MsG0480018569.01.T01:CDS 60.0%
GGAACAGTCACCCTCTGTGG+AGG + Chr4:6766543-6766562 None:intergenic 60.0%
GGACGACCGCCGAGCATAAT+TGG + Chr4:6766247-6766266 None:intergenic 60.0%
TGATGTGGGCACACTCAGGG+AGG - Chr4:6766376-6766395 MsG0480018569.01.T01:CDS 60.0%
! TGACCAAACGGCGGTGATGG+AGG + Chr4:6766282-6766301 None:intergenic 60.0%
! TGTTTTCGCCGTGGAGGTCG+TGG + Chr4:6766145-6766164 None:intergenic 60.0%
!! GAGGTCGTGGTGGTTGGTGA+TGG + Chr4:6766132-6766151 None:intergenic 60.0%
!! GTTGGTGGCGACGGTGATGT+GGG - Chr4:6766362-6766381 MsG0480018569.01.T01:CDS 60.0%
!!! GGGTGTTGTTTTCGCCGTGG+AGG + Chr4:6766151-6766170 None:intergenic 60.0%
CATCACCGTCGCCACCAACG+AGG + Chr4:6766361-6766380 None:intergenic 65.0%
GCCGGAACAGTCACCCTCTG+TGG + Chr4:6766546-6766565 None:intergenic 65.0%
TTTCGCCGTGGAGGTCGTGG+TGG + Chr4:6766142-6766161 None:intergenic 65.0%
!! CCAAACGGCGGTGATGGAGG+CGG + Chr4:6766279-6766298 None:intergenic 65.0%
!! CGTTGGTGGCGACGGTGATG+TGG - Chr4:6766361-6766380 MsG0480018569.01.T01:CDS 65.0%
!! GTTCGGTGCTGCGTGCAGCA+GGG + Chr4:6766421-6766440 None:intergenic 65.0%
CCGCCTCCATCACCGCCGTT+TGG - Chr4:6766276-6766295 MsG0480018569.01.T01:CDS 70.0%
GCCGTGGAGGTCGTGGTGGT+TGG + Chr4:6766138-6766157 None:intergenic 70.0%
!! CGTTCGGTGCTGCGTGCAGC+AGG + Chr4:6766422-6766441 None:intergenic 70.0%
!! CGGTGCTGCGTGCAGCAGGG+AGG + Chr4:6766418-6766437 None:intergenic 75.0%
Chromosome Type Strat End Strand Name
Chr4 gene 6766065 6766721 6766065 ID=MsG0480018569.01;Name=MsG0480018569.01
Chr4 mRNA 6766065 6766721 6766065 ID=MsG0480018569.01.T01;Parent=MsG0480018569.01;Name=MsG0480018569.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|218
Chr4 exon 6766065 6766721 6766065 ID=MsG0480018569.01.T01:exon:2257;Parent=MsG0480018569.01.T01
Chr4 CDS 6766065 6766721 6766065 ID=MsG0480018569.01.T01:cds;Parent=MsG0480018569.01.T01
Gene Sequence

>MsG0480018569.01.T01

ATGCCTCCAAATCCACCAAAGTCTTCACTTCTCCTCCACAGGATCAACCACACCACCACTACGACCATCACCAACCACCACGACCTCCACGGCGAAAACAACACCCTCTTCATCAACCCTGTCAGCAACACCATTCCTAATACTATAGCCCACTATCACACACACTCAATATCATCCGACCAATTATGCTCGGCGGTCGTCCAAGAGACAACCGCCTCCATCACCGCCGTTTGGTCAGTGGTTCGTCGCTTCGACAAACCACAAGCCTACAAAAATTTCATCAAGAGTTGTAACCTCGTTGGTGGCGACGGTGATGTGGGCACACTCAGGGAGGTCAACCTTATATCTGGCCTCCCTGCTGCACGCAGCACCGAACGCCTTGAGATCCTCGATGAGGATCGCCATGTCATCAGTTTTAGTGTTGTTGGTGGTGATCACAAGCTTGCTAACTACCGTTCCGTTACTACACTTCATCCCTCCACAGAGGGTGACTGTTCCGGCACGGTGATAGTTGAGTCCTATGTGGTGGATATTCCTTCGGAAAATACTAAAGAGGACACACATGTGTTTGTTGATACAATTGTTCGGTGTAACCTTCAGTCACTTGCACAAACCGCAGAGAACATTACACAGCAAAACAACAAGAGTTGTTCCTGA
Protein sequence

>MsG0480018569.01.T01

MPPNPPKSSLLLHRINHTTTTTITNHHDLHGENNTLFINPVSNTIPNTIAHYHTHSISSDQLCSAVVQETTASITAVWSVVRRFDKPQAYKNFIKSCNLVGGDGDVGTLREVNLISGLPAARSTERLEILDEDRHVISFSVVGGDHKLANYRSVTTLHPSTEGDCSGTVIVESYVVDIPSENTKEDTHVFVDTIVRCNLQSLAQTAENITQQNNKSCS*