AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055957


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055957.t1 MTR_7g093910 99.296 142 1 0 1 142 1 142 2.28e-100 284
MS.gene055957.t1 MTR_7g108320 85.211 142 21 0 1 142 1 142 1.21e-85 246
MS.gene055957.t1 MTR_7g114060 88.060 134 16 0 9 142 6 139 5.04e-83 240
MS.gene055957.t1 MTR_7g114040 88.060 134 16 0 9 142 6 139 5.04e-83 240
MS.gene055957.t1 MTR_2g082510 80.328 122 20 1 13 130 3 124 6.88e-67 199
MS.gene055957.t1 MTR_2g082220 81.818 121 14 2 13 127 3 121 3.76e-66 197
MS.gene055957.t1 MTR_7g114050 78.626 131 17 2 12 142 11 130 5.35e-66 196
MS.gene055957.t1 MTR_7g113160 76.271 118 28 0 12 129 16 133 8.22e-60 181
MS.gene055957.t1 MTR_2g096610 79.439 107 22 0 21 127 21 127 1.22e-58 179
MS.gene055957.t1 MTR_4g071150 80.189 106 21 0 22 127 24 129 1.01e-57 176
MS.gene055957.t1 MTR_4g064005 79.245 106 22 0 22 127 24 129 3.30e-57 175
MS.gene055957.t1 MTR_4g063410 72.500 120 27 1 22 141 24 137 3.45e-57 175
MS.gene055957.t1 MTR_2g096570 79.245 106 22 0 22 127 23 128 4.00e-57 175
MS.gene055957.t1 MTR_4g063280 78.505 107 23 0 21 127 17 123 4.12e-57 174
MS.gene055957.t1 MTR_8g086640 79.245 106 22 0 22 127 24 129 5.11e-57 174
MS.gene055957.t1 MTR_4g064967 79.245 106 22 0 22 127 24 129 5.52e-57 174
MS.gene055957.t1 MTR_6g005150 65.421 107 28 2 22 127 26 124 3.30e-41 134
MS.gene055957.t1 MTR_1g011750 61.682 107 39 2 21 126 25 130 3.47e-38 126
MS.gene055957.t1 MTR_1g011850 61.682 107 39 2 21 126 25 130 3.47e-38 126
MS.gene055957.t1 MTR_1g114050 54.688 128 55 3 1 126 1 127 1.44e-37 125
MS.gene055957.t1 MTR_1g071040 55.469 128 44 4 11 126 4 130 9.04e-37 123
MS.gene055957.t1 MTR_4g063300 77.027 74 17 0 43 116 10 83 7.13e-35 117
MS.gene055957.t1 MTR_4g005910 83.333 48 8 0 84 131 3 50 3.94e-23 85.9
MS.gene055957.t1 MTR_7g010440 59.494 79 32 0 48 126 94 172 3.70e-22 89.4
MS.gene055957.t1 MTR_4g048490 45.794 107 29 2 22 128 26 103 1.89e-20 80.5
MS.gene055957.t1 MTR_1g069770 46.512 86 45 1 43 127 9 94 6.25e-18 74.3
MS.gene055957.t1 MTR_7g027610 41.121 107 37 2 21 126 13 94 1.69e-15 68.2
MS.gene055957.t1 MTR_0653s0030 40.594 101 35 2 5 105 20 95 7.82e-12 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055957.t1 AT1G54690 85.211 142 21 0 1 142 1 142 1.82e-85 246
MS.gene055957.t1 AT1G08880 83.803 142 23 0 1 142 1 142 1.51e-84 244
MS.gene055957.t1 AT4G27230 79.839 124 21 1 13 132 3 126 7.61e-67 199
MS.gene055957.t1 AT4G27230 79.839 124 21 1 13 132 3 126 7.61e-67 199
MS.gene055957.t1 AT5G54640 79.032 124 22 1 13 132 3 126 2.87e-66 197
MS.gene055957.t1 AT3G20670 79.032 124 22 1 13 132 3 126 2.04e-65 195
MS.gene055957.t1 AT1G51060 77.419 124 24 1 13 132 3 126 2.38e-65 195
MS.gene055957.t1 AT5G59870 72.059 136 32 3 4 134 2 136 1.35e-61 186
MS.gene055957.t1 AT5G27670 73.600 125 29 1 7 127 6 130 6.51e-57 174
MS.gene055957.t1 AT5G02560 78.505 107 23 0 21 127 23 129 1.84e-56 173
MS.gene055957.t1 AT5G02560 64.122 131 23 1 21 127 23 153 1.50e-50 159
MS.gene055957.t1 AT2G38810 62.037 108 37 3 21 126 27 132 2.02e-37 124
MS.gene055957.t1 AT2G38810 62.037 108 37 3 21 126 27 132 2.02e-37 124
MS.gene055957.t1 AT2G38810 62.037 108 37 3 21 126 27 132 2.02e-37 124
MS.gene055957.t1 AT2G38810 62.037 108 37 3 21 126 27 132 2.02e-37 124
MS.gene055957.t1 AT1G52740 60.000 105 40 2 23 126 27 130 6.76e-37 123
MS.gene055957.t1 AT3G54560 60.377 106 38 3 23 126 29 132 4.62e-36 121
MS.gene055957.t1 AT3G54560 60.377 106 38 3 23 126 29 132 4.62e-36 121
MS.gene055957.t1 AT4G13570 50.538 93 42 3 30 120 28 118 1.04e-21 84.3
MS.gene055957.t1 AT4G13570 50.000 92 42 3 31 120 35 124 3.79e-21 82.8

Find 51 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAAACGGACTTGGTGGTTT+TGG 0.182132 7.4:-15181900 None:intergenic
TTCTTTCCAGCCACCTTCTT+TGG 0.190245 7.4:-15182311 None:intergenic
TTTGCCCCTTCCACCTTTCT+TGG 0.205738 7.4:-15181876 None:intergenic
GCTGGAAAGAAGGGAGAAAT+TGG 0.339055 7.4:+15182323 MS.gene055957:CDS
CCTTCTTTGGCAACAAAGTC+TGG 0.341613 7.4:-15182298 None:intergenic
CGATGCGGCCAACGGGGAAC+TGG 0.364040 7.4:-15181943 None:intergenic
AGAACGGCGGAGAGGTAAAC+AGG 0.367840 7.4:-15182016 None:intergenic
AACAAAGTCTGGTGAATGTT+AGG 0.388717 7.4:-15182287 None:intergenic
TATTCTCAACGTGTTGGATC+TGG 0.390278 7.4:+15181989 MS.gene055957:CDS
GCTTGATCTGGAAACGGACT+TGG 0.398049 7.4:-15181909 None:intergenic
TGAAGAATTGAGCAAATTGT+TGG 0.398697 7.4:+15182232 MS.gene055957:CDS
AAGCGAGCGATGCGGCCAAC+GGG 0.403212 7.4:-15181950 None:intergenic
GAGAATAACGACCTGCTTTG+AGG 0.406903 7.4:-15181973 None:intergenic
CCAGACTTTGTTGCCAAAGA+AGG 0.415982 7.4:+15182298 MS.gene055957:CDS
GGCTTTGCTTGATCTGGAAA+CGG 0.440381 7.4:-15181915 None:intergenic
GAGACCGGCTTTGCTTGATC+TGG 0.448607 7.4:-15181921 None:intergenic
CGTTCCTCACAGCTAGTTGA+AGG 0.456555 7.4:-15182208 None:intergenic
AAAGAAGGTGGCTGGAAAGA+AGG 0.474142 7.4:+15182313 MS.gene055957:CDS
TTGTTGCCAAAGAAGGTGGC+TGG 0.488184 7.4:+15182305 MS.gene055957:CDS
AGAAATTGGATCTGTTAGTC+AGG 0.492158 7.4:+15182337 MS.gene055957:CDS
ATCGCTCGCTTCCTCAAAGC+AGG 0.500822 7.4:+15181962 MS.gene055957:CDS
GAAGAATTGAGCAAATTGTT+GGG 0.504162 7.4:+15182233 MS.gene055957:CDS
TGATCTGGAAACGGACTTGG+TGG 0.521894 7.4:-15181906 None:intergenic
GCCAACGGGGAACTGGAGAC+CGG 0.528668 7.4:-15181936 None:intergenic
CAACAACCAAGAAAGGTGGA+AGG 0.537155 7.4:+15181870 MS.gene055957:CDS
GAAGCGAGCGATGCGGCCAA+CGG 0.540733 7.4:-15181951 None:intergenic
ACAGCTAGTTGAAGGTGCCT+TGG 0.544219 7.4:-15182200 None:intergenic
AACAACCAAGAAAGGTGGAA+GGG 0.559634 7.4:+15181871 MS.gene055957:CDS
GCAACAGCAACAACCAAGAA+AGG 0.559755 7.4:+15181863 MS.gene055957:CDS
GGTCGTTATTCTCAACGTGT+TGG 0.559902 7.4:+15181983 MS.gene055957:CDS
GGACATGTGACTATTGCTAA+TGG 0.560318 7.4:+15182254 MS.gene055957:CDS
ACAACCAAGAAAGGTGGAAG+GGG 0.560784 7.4:+15181872 MS.gene055957:CDS
GACTTTGTTGCCAAAGAAGG+TGG 0.566455 7.4:+15182301 MS.gene055957:CDS
AAGAAGGTGGCTGGAAAGAA+GGG 0.567889 7.4:+15182314 MS.gene055957:CDS
GCCGGTCTCCAGTTCCCCGT+TGG 0.568530 7.4:+15181935 MS.gene055957:CDS
GTTTCCAGATCAAGCAAAGC+CGG 0.580006 7.4:+15181917 MS.gene055957:CDS
GGCGCAGAGGTATTCAAGAA+CGG 0.601101 7.4:-15182032 None:intergenic
CAAGGGATAACAAGAAGACA+AGG 0.618509 7.4:+15182171 MS.gene055957:CDS
AATTGGCTGGTAATGCTGCA+AGG 0.630027 7.4:+15182153 MS.gene055957:CDS
AGCGAGCGATGCGGCCAACG+GGG 0.630212 7.4:-15181949 None:intergenic
ATTGGCTGGTAATGCTGCAA+GGG 0.637236 7.4:+15182154 MS.gene055957:CDS
ACAGCAACAACCAAGAAAGG+TGG 0.649404 7.4:+15181866 MS.gene055957:CDS
CTTTGAGGAAGCGAGCGATG+CGG 0.656929 7.4:-15181958 None:intergenic
TCTTGAATACCTCTGCGCCG+AGG 0.661590 7.4:+15182036 MS.gene055957:CDS
CATGTGACTATTGCTAATGG+TGG 0.673088 7.4:+15182257 MS.gene055957:CDS
GAACGGCGGAGAGGTAAACA+GGG 0.687773 7.4:-15182015 None:intergenic
GGTATTCAAGAACGGCGGAG+AGG 0.689904 7.4:-15182024 None:intergenic
GGCACCTTCAACTAGCTGTG+AGG 0.707498 7.4:+15182204 MS.gene055957:CDS
AGAAGACAAGGATTGTACCA+AGG 0.714311 7.4:+15182183 MS.gene055957:CDS
GCAGAGGTATTCAAGAACGG+CGG 0.737402 7.4:-15182029 None:intergenic
AACGGCGGAGAGGTAAACAG+GGG 0.752615 7.4:-15182014 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AACCGTTTATATTAATTTTT+GGG + chr7.4:15182116-15182135 MS.gene055957:intron 15.0%
!!! TAACCGTTTATATTAATTTT+TGG + chr7.4:15182115-15182134 MS.gene055957:intron 15.0%
!! CACCCAAAAATTAATATAAA+CGG - chr7.4:15182121-15182140 None:intergenic 20.0%
! AAAGCAAAGAAAAATTACCT+CGG - chr7.4:15182056-15182075 None:intergenic 25.0%
!!! ATATTAATTTTTGGGTGGTT+AGG + chr7.4:15182124-15182143 MS.gene055957:intron 25.0%
!!! CGTTTATATTAATTTTTGGG+TGG + chr7.4:15182119-15182138 MS.gene055957:intron 25.0%
GAAGAATTGAGCAAATTGTT+GGG + chr7.4:15182233-15182252 MS.gene055957:CDS 30.0%
TGAAGAATTGAGCAAATTGT+TGG + chr7.4:15182232-15182251 MS.gene055957:CDS 30.0%
AACAAAGTCTGGTGAATGTT+AGG - chr7.4:15182290-15182309 None:intergenic 35.0%
AGAAATTGGATCTGTTAGTC+AGG + chr7.4:15182337-15182356 MS.gene055957:CDS 35.0%
CAAACTCAAAATAACACTCG+AGG - chr7.4:15182082-15182101 None:intergenic 35.0%
!!! ATTTTTGGGTGGTTAGGTTT+TGG + chr7.4:15182130-15182149 MS.gene055957:intron 35.0%
AACAACCAAGAAAGGTGGAA+GGG + chr7.4:15181871-15181890 MS.gene055957:CDS 40.0%
AGAAGACAAGGATTGTACCA+AGG + chr7.4:15182183-15182202 MS.gene055957:CDS 40.0%
CAAGGGATAACAAGAAGACA+AGG + chr7.4:15182171-15182190 MS.gene055957:CDS 40.0%
CATGTGACTATTGCTAATGG+TGG + chr7.4:15182257-15182276 MS.gene055957:CDS 40.0%
GGACATGTGACTATTGCTAA+TGG + chr7.4:15182254-15182273 MS.gene055957:CDS 40.0%
TATTCTCAACGTGTTGGATC+TGG + chr7.4:15181989-15182008 MS.gene055957:CDS 40.0%
AAAGAAGGTGGCTGGAAAGA+AGG + chr7.4:15182313-15182332 MS.gene055957:CDS 45.0%
AAGAAGGTGGCTGGAAAGAA+GGG + chr7.4:15182314-15182333 MS.gene055957:CDS 45.0%
ACAACCAAGAAAGGTGGAAG+GGG + chr7.4:15181872-15181891 MS.gene055957:CDS 45.0%
ACAGCAACAACCAAGAAAGG+TGG + chr7.4:15181866-15181885 MS.gene055957:CDS 45.0%
CAACAACCAAGAAAGGTGGA+AGG + chr7.4:15181870-15181889 MS.gene055957:CDS 45.0%
CCAGACTTTGTTGCCAAAGA+AGG + chr7.4:15182298-15182317 MS.gene055957:CDS 45.0%
CCTTCTTTGGCAACAAAGTC+TGG - chr7.4:15182301-15182320 None:intergenic 45.0%
GACTTTGTTGCCAAAGAAGG+TGG + chr7.4:15182301-15182320 MS.gene055957:CDS 45.0%
GAGAATAACGACCTGCTTTG+AGG - chr7.4:15181976-15181995 None:intergenic 45.0%
GCAACAGCAACAACCAAGAA+AGG + chr7.4:15181863-15181882 MS.gene055957:CDS 45.0%
GCTGGAAAGAAGGGAGAAAT+TGG + chr7.4:15182323-15182342 MS.gene055957:CDS 45.0%
GGCTTTGCTTGATCTGGAAA+CGG - chr7.4:15181918-15181937 None:intergenic 45.0%
GGTCGTTATTCTCAACGTGT+TGG + chr7.4:15181983-15182002 MS.gene055957:CDS 45.0%
GTTTCCAGATCAAGCAAAGC+CGG + chr7.4:15181917-15181936 MS.gene055957:CDS 45.0%
TTCTTTCCAGCCACCTTCTT+TGG - chr7.4:15182314-15182333 None:intergenic 45.0%
! AATTGGCTGGTAATGCTGCA+AGG + chr7.4:15182153-15182172 MS.gene055957:CDS 45.0%
! ATTGGCTGGTAATGCTGCAA+GGG + chr7.4:15182154-15182173 MS.gene055957:CDS 45.0%
!!! GAAACGGACTTGGTGGTTTT+GGG - chr7.4:15181902-15181921 None:intergenic 45.0%
!!! GGGTGGTTAGGTTTTGGAAT+TGG + chr7.4:15182136-15182155 MS.gene055957:intron 45.0%
!!! GGTTAGGTTTTGGAATTGGC+TGG + chr7.4:15182140-15182159 MS.gene055957:intron 45.0%
CGTTCCTCACAGCTAGTTGA+AGG - chr7.4:15182211-15182230 None:intergenic 50.0%
GAAAAATTACCTCGGCGCAG+AGG - chr7.4:15182048-15182067 None:intergenic 50.0%
TTGTTGCCAAAGAAGGTGGC+TGG + chr7.4:15182305-15182324 MS.gene055957:CDS 50.0%
TTTGCCCCTTCCACCTTTCT+TGG - chr7.4:15181879-15181898 None:intergenic 50.0%
! GCTTGATCTGGAAACGGACT+TGG - chr7.4:15181912-15181931 None:intergenic 50.0%
! TGATCTGGAAACGGACTTGG+TGG - chr7.4:15181909-15181928 None:intergenic 50.0%
!! ACAGCTAGTTGAAGGTGCCT+TGG - chr7.4:15182203-15182222 None:intergenic 50.0%
!! GCAGAGGTATTCAAGAACGG+CGG - chr7.4:15182032-15182051 None:intergenic 50.0%
!! GGCGCAGAGGTATTCAAGAA+CGG - chr7.4:15182035-15182054 None:intergenic 50.0%
!!! GGAAACGGACTTGGTGGTTT+TGG - chr7.4:15181903-15181922 None:intergenic 50.0%
AACGGCGGAGAGGTAAACAG+GGG - chr7.4:15182017-15182036 None:intergenic 55.0%
AGAACGGCGGAGAGGTAAAC+AGG - chr7.4:15182019-15182038 None:intergenic 55.0%
ATCGCTCGCTTCCTCAAAGC+AGG + chr7.4:15181962-15181981 MS.gene055957:CDS 55.0%
GAACGGCGGAGAGGTAAACA+GGG - chr7.4:15182018-15182037 None:intergenic 55.0%
GGCACCTTCAACTAGCTGTG+AGG + chr7.4:15182204-15182223 MS.gene055957:CDS 55.0%
GGTATTCAAGAACGGCGGAG+AGG - chr7.4:15182027-15182046 None:intergenic 55.0%
TCTTGAATACCTCTGCGCCG+AGG + chr7.4:15182036-15182055 MS.gene055957:CDS 55.0%
! CTTTGAGGAAGCGAGCGATG+CGG - chr7.4:15181961-15181980 None:intergenic 55.0%
! GAGACCGGCTTTGCTTGATC+TGG - chr7.4:15181924-15181943 None:intergenic 55.0%
AAGCGAGCGATGCGGCCAAC+GGG - chr7.4:15181953-15181972 None:intergenic 65.0%
GAAGCGAGCGATGCGGCCAA+CGG - chr7.4:15181954-15181973 None:intergenic 65.0%
GCCAACGGGGAACTGGAGAC+CGG - chr7.4:15181939-15181958 None:intergenic 65.0%
AGCGAGCGATGCGGCCAACG+GGG - chr7.4:15181952-15181971 None:intergenic 70.0%
CGATGCGGCCAACGGGGAAC+TGG - chr7.4:15181946-15181965 None:intergenic 70.0%
GCCGGTCTCCAGTTCCCCGT+TGG + chr7.4:15181935-15181954 MS.gene055957:CDS 70.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 15181851 15182367 15181851 ID=MS.gene055957
chr7.4 mRNA 15181851 15182367 15181851 ID=MS.gene055957.t1;Parent=MS.gene055957
chr7.4 exon 15181851 15182057 15181851 ID=MS.gene055957.t1.exon1;Parent=MS.gene055957.t1
chr7.4 CDS 15181851 15182057 15181851 ID=cds.MS.gene055957.t1;Parent=MS.gene055957.t1
chr7.4 exon 15182146 15182367 15182146 ID=MS.gene055957.t1.exon2;Parent=MS.gene055957.t1
chr7.4 CDS 15182146 15182367 15182146 ID=cds.MS.gene055957.t1;Parent=MS.gene055957.t1
Gene Sequence

>MS.gene055957

ATGGCTTCAGATGCAACAGCAACAACCAAGAAAGGTGGAAGGGGCAAACCCAAAACCACCAAGTCCGTTTCCAGATCAAGCAAAGCCGGTCTCCAGTTCCCCGTTGGCCGCATCGCTCGCTTCCTCAAAGCAGGTCGTTATTCTCAACGTGTTGGATCTGGTTCCCCTGTTTACCTCTCCGCCGTTCTTGAATACCTCTGCGCCGAGGTAATTTTTCTTTGCTTTAATCCTCGAGTGTTATTTTGAGTTTGAAAATATGTTTATTAACCGTTTATATTAATTTTTGGGTGGTTAGGTTTTGGAATTGGCTGGTAATGCTGCAAGGGATAACAAGAAGACAAGGATTGTACCAAGGCACCTTCAACTAGCTGTGAGGAACGATGAAGAATTGAGCAAATTGTTGGGACATGTGACTATTGCTAATGGTGGTGTTTTGCCTAACATTCACCAGACTTTGTTGCCAAAGAAGGTGGCTGGAAAGAAGGGAGAAATTGGATCTGTTAGTCAGGAGTTTTAG

Protein sequence

>MS.gene055957.t1

MASDATATTKKGGRGKPKTTKSVSRSSKAGLQFPVGRIARFLKAGRYSQRVGSGSPVYLSAVLEYLCAEVLELAGNAARDNKKTRIVPRHLQLAVRNDEELSKLLGHVTIANGGVLPNIHQTLLPKKVAGKKGEIGSVSQEF