AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016875.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016875.01.T01 MTR_3g096930 98.246 114 2 0 12 125 84 197 8.96e-81 245
MsG0380016875.01.T01 MTR_8g094590 78.070 114 25 0 12 125 73 186 2.73e-66 204
MsG0380016875.01.T01 MTR_8g094590 78.070 114 25 0 12 125 73 186 3.65e-65 204
MsG0380016875.01.T01 MTR_8g094590 78.070 114 25 0 12 125 73 186 7.46e-65 204
MsG0380016875.01.T01 MTR_1g029810 58.261 115 47 1 12 125 57 171 2.79e-40 139
MsG0380016875.01.T01 MTR_1g029810 58.261 115 47 1 12 125 57 171 6.69e-40 139
MsG0380016875.01.T01 MTR_6g084710 46.154 117 59 3 12 125 191 306 1.54e-30 115
MsG0380016875.01.T01 MTR_6g084710 40.667 150 74 5 12 147 191 339 1.84e-30 115
MsG0380016875.01.T01 MTR_4g023650 50.000 102 44 3 12 106 61 162 5.37e-24 96.3
MsG0380016875.01.T01 MTR_4g023630 50.980 102 42 4 13 106 62 163 1.53e-22 92.4
MsG0380016875.01.T01 MTR_8g096990 36.449 107 60 3 13 115 87 189 3.72e-15 71.6
MsG0380016875.01.T01 MTR_5g080890 36.449 107 60 3 13 115 87 189 7.14e-15 70.9
MsG0380016875.01.T01 MTR_5g080960 36.449 107 60 3 13 115 87 189 1.38e-14 70.1
MsG0380016875.01.T01 MTR_8g038280 35.455 110 63 3 13 118 87 192 1.54e-14 69.7
MsG0380016875.01.T01 MTR_3g006820 33.043 115 72 3 13 125 59 170 7.70e-14 67.8
MsG0380016875.01.T01 MTR_7g117430 36.170 94 51 4 13 101 142 231 1.21e-13 67.4
MsG0380016875.01.T01 MTR_1g115210 33.333 105 61 4 13 113 147 246 1.85e-13 66.6
MsG0380016875.01.T01 MTR_1g061940 30.702 114 68 3 12 115 83 195 1.90e-13 66.6
MsG0380016875.01.T01 MTR_6g085010 30.973 113 66 4 17 125 161 265 3.31e-13 66.2
MsG0380016875.01.T01 MTR_1g078240 30.088 113 69 3 12 115 69 180 7.68e-13 65.1
MsG0380016875.01.T01 MTR_1g078240 30.088 113 69 3 12 115 69 180 7.75e-13 65.1
MsG0380016875.01.T01 MTR_1g078240 30.088 113 69 3 12 115 69 180 9.71e-13 64.7
MsG0380016875.01.T01 MTR_6g090290 32.710 107 64 3 13 115 87 189 2.23e-12 63.5
MsG0380016875.01.T01 MTR_5g091130 35.514 107 62 4 13 113 192 297 3.12e-12 63.2
MsG0380016875.01.T01 MTR_3g028120 31.481 108 68 3 12 115 89 194 4.92e-12 62.8
MsG0380016875.01.T01 MTR_2g070430 36.975 119 53 7 5 115 80 184 9.58e-12 62.0
MsG0380016875.01.T01 MTR_2g059460 31.481 108 65 4 13 115 60 163 2.57e-11 60.5
MsG0380016875.01.T01 MTR_3g097150 30.088 113 70 4 13 121 103 210 3.64e-11 60.1
MsG0380016875.01.T01 MTR_8g103880 30.435 115 69 4 15 125 119 226 4.98e-11 59.7
MsG0380016875.01.T01 MTR_7g080230 26.549 113 73 3 12 115 71 182 6.71e-11 59.3
MsG0380016875.01.T01 MTR_2g067830 30.841 107 69 2 13 115 58 163 7.65e-11 59.3
MsG0380016875.01.T01 MTR_5g008150 31.897 116 71 3 13 124 64 175 8.88e-11 58.9
MsG0380016875.01.T01 MTR_1g111350 30.769 117 68 5 13 125 132 239 9.27e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016875.01.T01 AT4G33490 67.544 114 37 0 12 125 56 169 1.81e-53 174
MsG0380016875.01.T01 AT4G33490 67.544 114 37 0 12 125 59 172 3.24e-53 174
MsG0380016875.01.T01 AT1G44130 46.087 115 61 1 12 125 48 162 2.17e-33 121
MsG0380016875.01.T01 AT1G77480 46.087 115 61 1 12 125 66 180 8.01e-33 120
MsG0380016875.01.T01 AT1G77480 46.087 115 61 1 12 125 66 180 5.70e-31 115
MsG0380016875.01.T01 AT1G49050 38.750 160 83 5 3 147 20 179 4.72e-26 102
MsG0380016875.01.T01 AT1G49050 40.397 151 75 5 12 147 202 352 3.40e-25 100
MsG0380016875.01.T01 AT1G49050 40.397 151 75 5 12 147 202 352 6.57e-25 99.8
MsG0380016875.01.T01 AT2G36670 28.889 135 73 4 3 118 17 147 1.02e-12 64.7
MsG0380016875.01.T01 AT2G36670 28.889 135 73 4 3 118 17 147 1.02e-12 64.7
MsG0380016875.01.T01 AT1G01300 31.858 113 66 5 13 118 142 250 6.05e-12 62.4
MsG0380016875.01.T01 AT1G65240 29.204 113 68 3 12 115 73 182 7.59e-12 62.0
MsG0380016875.01.T01 AT2G03200 32.381 105 62 4 17 116 111 211 9.31e-12 62.0
MsG0380016875.01.T01 AT3G20015 33.333 117 67 5 13 125 131 240 9.54e-12 62.0
MsG0380016875.01.T01 AT2G36670 28.455 123 72 3 8 118 100 218 1.06e-11 61.6
MsG0380016875.01.T01 AT2G36670 28.689 122 71 3 9 118 96 213 1.13e-11 61.6
MsG0380016875.01.T01 AT5G10770 35.577 104 60 4 13 110 132 234 1.37e-11 61.6
MsG0380016875.01.T01 AT5G36260 30.088 113 67 4 12 115 77 186 2.20e-11 60.8
MsG0380016875.01.T01 AT3G18490 30.769 117 69 6 13 125 162 270 5.43e-11 59.7
MsG0380016875.01.T01 AT2G42980 31.776 107 66 4 13 113 160 265 9.22e-11 58.9

Find 40 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATACCACTCTCACTTCTTT+AGG 0.219577 3:-88895802 None:intergenic
ACCCTTTGCTAGCCTTAAAT+AGG 0.292658 3:-88895836 MsG0380016875.01.T01:CDS
GGGTATGTAAAGCCTATTTA+AGG 0.294967 3:+88895824 None:intergenic
AGACACCACATCCGCTTTAC+CGG 0.336790 3:-88896079 MsG0380016875.01.T01:CDS
GTGTCAATATCAAGAAAATA+TGG 0.341260 3:+88896339 None:intergenic
GCCTTGTTCGCGTTGCTCTC+AGG 0.405030 3:-88896283 MsG0380016875.01.T01:intron
CATCACATTGAAGCCATGTT+AGG 0.420882 3:+88896307 None:intergenic
CTTAAAGTTCGTATGGCACT+TGG 0.422527 3:-88895876 MsG0380016875.01.T01:CDS
ACCTGCATATGTTAAAAGTA+AGG 0.428729 3:+88896400 None:intergenic
TATGTTCTCAACTTTACAAA+TGG 0.435278 3:-88895906 MsG0380016875.01.T01:CDS
ATAATGTGACTATCAACATT+GGG 0.460427 3:-88896374 MsG0380016875.01.T01:CDS
ATATCAAGAAAATATGGCCT+TGG 0.468926 3:+88896345 None:intergenic
GCACAGAGGGGATGCCTGCA+TGG 0.478162 3:+88896038 None:intergenic
TCAAGAAAATATGGCCTTGG+TGG 0.495645 3:+88896348 None:intergenic
CTAAAGAAGTGAGAGTGGTA+TGG 0.500431 3:+88895803 None:intergenic
GCCTATTTAAGGCTAGCAAA+GGG 0.506286 3:+88895835 None:intergenic
GTGCCATACGAACTTTAAGT+TGG 0.511112 3:+88895880 None:intergenic
GCAGATCATTACTCATCTCT+TGG 0.518717 3:-88895948 MsG0380016875.01.T01:CDS
TATAATGTGACTATCAACAT+TGG 0.520628 3:-88896375 MsG0380016875.01.T01:CDS
CTAGGCCGGTAAAGCGGATG+TGG 0.520658 3:+88896074 None:intergenic
GTGATGCACGGATGCACAGA+GGG 0.529685 3:+88896025 None:intergenic
CCTGCATATGTTAAAAGTAA+GGG 0.533468 3:+88896401 None:intergenic
AGCCTATTTAAGGCTAGCAA+AGG 0.534680 3:+88895834 None:intergenic
CATGGGACTAAGTCATTGCT+AGG 0.535975 3:+88896056 None:intergenic
TAAAGAAGTGAGAGTGGTAT+GGG 0.551763 3:+88895804 None:intergenic
CTGTGCATCCGTGCATCACA+CGG 0.557548 3:-88896021 MsG0380016875.01.T01:CDS
CACAGAGGGGATGCCTGCAT+GGG 0.564456 3:+88896039 None:intergenic
GGACTAAGTCATTGCTAGGC+CGG 0.569566 3:+88896060 None:intergenic
GTAGTTATCCGTGTGATGCA+CGG 0.570573 3:+88896013 None:intergenic
TTAAAGTTCGTATGGCACTT+GGG 0.575859 3:-88895875 MsG0380016875.01.T01:CDS
ACACGGGTAGCGACCTAACA+TGG 0.578697 3:-88896320 MsG0380016875.01.T01:CDS
ACCTGAGAGCAACGCGAACA+AGG 0.580548 3:+88896282 None:intergenic
GCAATGACTTAGTCCCATGC+AGG 0.592637 3:-88896052 MsG0380016875.01.T01:CDS
CAAGAAAATATGGCCTTGGT+GGG 0.593840 3:+88896349 None:intergenic
AGTCCAACTTAAAGTTCGTA+TGG 0.601835 3:-88895883 MsG0380016875.01.T01:CDS
AAAACCTAAAGAAGTGAGAG+TGG 0.635909 3:+88895798 None:intergenic
TCAACATTGGGTACCCACCA+AGG 0.642379 3:-88896362 MsG0380016875.01.T01:CDS
TCATTGCTAGGCCGGTAAAG+CGG 0.656612 3:+88896068 None:intergenic
TGTGATGCACGGATGCACAG+AGG 0.715403 3:+88896024 None:intergenic
TGATGCACGGATGCACAGAG+GGG 0.795188 3:+88896026 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTATTGAAGATTAATTTGAT+AGG + Chr3:88896105-88896124 None:intergenic 15.0%
!!! ATATTTTCTTGATATTGACA+CGG - Chr3:88895877-88895896 MsG0380016875.01.T01:CDS 20.0%
! ATAATGTGACTATCAACATT+GGG - Chr3:88895840-88895859 MsG0380016875.01.T01:CDS 25.0%
! CTAATCTCATTTCAAGAAAA+AGG + Chr3:88896028-88896047 None:intergenic 25.0%
! GTGTCAATATCAAGAAAATA+TGG + Chr3:88895878-88895897 None:intergenic 25.0%
! TATAATGTGACTATCAACAT+TGG - Chr3:88895839-88895858 MsG0380016875.01.T01:CDS 25.0%
! TATGTTCTCAACTTTACAAA+TGG - Chr3:88896308-88896327 MsG0380016875.01.T01:CDS 25.0%
!! TATTTTCTTGATATTGACAC+GGG - Chr3:88895878-88895897 MsG0380016875.01.T01:CDS 25.0%
!!! TTCAAAGTTGTTAATTTGCT+AGG + Chr3:88895997-88896016 None:intergenic 25.0%
ACCTGCATATGTTAAAAGTA+AGG + Chr3:88895817-88895836 None:intergenic 30.0%
ATATCAAGAAAATATGGCCT+TGG + Chr3:88895872-88895891 None:intergenic 30.0%
CAGACATACATATATCTATC+TGG + Chr3:88896059-88896078 None:intergenic 30.0%
CCTGCATATGTTAAAAGTAA+GGG + Chr3:88895816-88895835 None:intergenic 30.0%
! TGCTAGGTAATTTTGAATGT+TGG + Chr3:88895981-88896000 None:intergenic 30.0%
AGTCCAACTTAAAGTTCGTA+TGG - Chr3:88896331-88896350 MsG0380016875.01.T01:CDS 35.0%
GGGTATGTAAAGCCTATTTA+AGG + Chr3:88896393-88896412 None:intergenic 35.0%
TAAAGAAGTGAGAGTGGTAT+GGG + Chr3:88896413-88896432 None:intergenic 35.0%
TTAAAGTTCGTATGGCACTT+GGG - Chr3:88896339-88896358 MsG0380016875.01.T01:CDS 35.0%
!! CCCTTACTTTTAACATATGC+AGG - Chr3:88895813-88895832 MsG0380016875.01.T01:CDS 35.0%
CATCACATTGAAGCCATGTT+AGG + Chr3:88895910-88895929 None:intergenic 40.0%
CTAAAGAAGTGAGAGTGGTA+TGG + Chr3:88896414-88896433 None:intergenic 40.0%
CTTAAAGTTCGTATGGCACT+TGG - Chr3:88896338-88896357 MsG0380016875.01.T01:CDS 40.0%
GCAGATCATTACTCATCTCT+TGG - Chr3:88896266-88896285 MsG0380016875.01.T01:intron 40.0%
GTGCCATACGAACTTTAAGT+TGG + Chr3:88896337-88896356 None:intergenic 40.0%
! AGCCTATTTAAGGCTAGCAA+AGG + Chr3:88896383-88896402 None:intergenic 40.0%
! CAAGAAAATATGGCCTTGGT+GGG + Chr3:88895868-88895887 None:intergenic 40.0%
! GCCTATTTAAGGCTAGCAAA+GGG + Chr3:88896382-88896401 None:intergenic 40.0%
! TCAAGAAAATATGGCCTTGG+TGG + Chr3:88895869-88895888 None:intergenic 40.0%
!! ACCCTTTGCTAGCCTTAAAT+AGG - Chr3:88896378-88896397 MsG0380016875.01.T01:CDS 40.0%
CATGGGACTAAGTCATTGCT+AGG + Chr3:88896161-88896180 None:intergenic 45.0%
GTAGTTATCCGTGTGATGCA+CGG + Chr3:88896204-88896223 None:intergenic 45.0%
AGACACCACATCCGCTTTAC+CGG - Chr3:88896135-88896154 MsG0380016875.01.T01:intron 50.0%
GCAATGACTTAGTCCCATGC+AGG - Chr3:88896162-88896181 MsG0380016875.01.T01:intron 50.0%
GGACTAAGTCATTGCTAGGC+CGG + Chr3:88896157-88896176 None:intergenic 50.0%
TCAACATTGGGTACCCACCA+AGG - Chr3:88895852-88895871 MsG0380016875.01.T01:CDS 50.0%
TCATTGCTAGGCCGGTAAAG+CGG + Chr3:88896149-88896168 None:intergenic 50.0%
ACACGGGTAGCGACCTAACA+TGG - Chr3:88895894-88895913 MsG0380016875.01.T01:CDS 55.0%
ACCTGAGAGCAACGCGAACA+AGG + Chr3:88895935-88895954 None:intergenic 55.0%
CTGTGCATCCGTGCATCACA+CGG - Chr3:88896193-88896212 MsG0380016875.01.T01:intron 55.0%
GTGATGCACGGATGCACAGA+GGG + Chr3:88896192-88896211 None:intergenic 55.0%
TGATGCACGGATGCACAGAG+GGG + Chr3:88896191-88896210 None:intergenic 55.0%
TGTGATGCACGGATGCACAG+AGG + Chr3:88896193-88896212 None:intergenic 55.0%
CACAGAGGGGATGCCTGCAT+GGG + Chr3:88896178-88896197 None:intergenic 60.0%
CTAGGCCGGTAAAGCGGATG+TGG + Chr3:88896143-88896162 None:intergenic 60.0%
! GCCTTGTTCGCGTTGCTCTC+AGG - Chr3:88895931-88895950 MsG0380016875.01.T01:CDS 60.0%
GCACAGAGGGGATGCCTGCA+TGG + Chr3:88896179-88896198 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr3 gene 88895803 88896433 88895803 ID=MsG0380016875.01;Name=MsG0380016875.01
Chr3 mRNA 88895803 88896433 88895803 ID=MsG0380016875.01.T01;Parent=MsG0380016875.01;Name=MsG0380016875.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|1|2|0|148
Chr3 exon 88896284 88896433 88896284 ID=MsG0380016875.01.T01:exon:30735;Parent=MsG0380016875.01.T01
Chr3 exon 88895803 88896099 88895803 ID=MsG0380016875.01.T01:exon:30734;Parent=MsG0380016875.01.T01
Chr3 CDS 88896284 88896433 88896284 ID=MsG0380016875.01.T01:cds;Parent=MsG0380016875.01.T01
Chr3 CDS 88895803 88896099 88895803 ID=MsG0380016875.01.T01:cds;Parent=MsG0380016875.01.T01
Gene Sequence

>MsG0380016875.01.T01

ATGCAAGTCACCCTTACTTTTAACATATGCAGGTTTTATAATGTGACTATCAACATTGGGTACCCACCAAGGCCATATTTTCTTGATATTGACACGGGTAGCGACCTAACATGGCTTCAATGTGATGCGCCTTGTTCGCGTTGCTCTCAGACACCACATCCGCTTTACCGGCCTAGCAATGACTTAGTCCCATGCAGGCATCCCCTCTGTGCATCCGTGCATCACACGGATAACTACGACTGTGAAGTCGAGCATCAGTGTGACTATGAAGTTGAGTATGCAGATCATTACTCATCTCTTGGTGTACTTGTCAATGATGTTTATGTTCTCAACTTTACAAATGGAGTCCAACTTAAAGTTCGTATGGCACTTGGGTTAGTGACTCTTTCTCACCCTTTGCTAGCCTTAAATAGGCTTTACATACCCATACCACTCTCACTTCTTTAG

Protein sequence

>MsG0380016875.01.T01

MQVTLTFNICRFYNVTINIGYPPRPYFLDIDTGSDLTWLQCDAPCSRCSQTPHPLYRPSNDLVPCRHPLCASVHHTDNYDCEVEHQCDYEVEYADHYSSLGVLVNDVYVLNFTNGVQLKVRMALGLVTLSHPLLALNRLYIPIPLSLL*