AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780041180.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041180.01.T01 MTR_7g106050 97.619 210 5 0 1 210 1 210 7.37e-153 422
MsG0780041180.01.T01 MTR_1g057420 71.429 210 59 1 1 210 1 209 1.28e-107 308
MsG0780041180.01.T01 MTR_2g086790 49.772 219 98 2 4 210 3 221 9.12e-73 220
MsG0780041180.01.T01 MTR_7g106080 95.238 105 5 0 106 210 7 111 1.50e-70 210
MsG0780041180.01.T01 MTR_4g051880 49.545 220 100 4 1 210 1 219 1.66e-67 206
MsG0780041180.01.T01 MTR_3g092790 39.344 183 110 1 2 184 8 189 4.68e-38 131
MsG0780041180.01.T01 MTR_7g118270 34.574 188 114 3 24 210 50 229 8.24e-35 123
MsG0780041180.01.T01 MTR_8g024250 37.419 155 95 2 24 177 102 255 5.33e-23 94.0
MsG0780041180.01.T01 MTR_2g011350 31.613 155 100 4 33 184 37 188 6.08e-21 86.7
MsG0780041180.01.T01 MTR_5g087760 30.168 179 116 4 12 181 56 234 9.45e-18 79.3
MsG0780041180.01.T01 MTR_6g071410 31.373 153 100 4 24 172 15 166 2.72e-15 72.0
MsG0780041180.01.T01 MTR_6g070890 31.373 153 100 4 24 172 15 166 2.72e-15 72.0
MsG0780041180.01.T01 MTR_6g471090 28.477 151 103 4 19 166 9 157 6.42e-15 70.9
MsG0780041180.01.T01 MTR_6g070900 31.333 150 99 3 20 166 11 159 8.36e-15 70.5
MsG0780041180.01.T01 MTR_6g071400 31.333 150 99 3 20 166 11 159 8.36e-15 70.5
MsG0780041180.01.T01 MTR_3g063310 28.834 163 114 2 34 195 83 244 1.87e-13 67.4
MsG0780041180.01.T01 MTR_1g105570 25.153 163 117 2 27 189 58 215 3.41e-13 66.6
MsG0780041180.01.T01 MTR_1g057270 25.625 160 117 2 36 194 73 231 6.25e-13 65.9
MsG0780041180.01.T01 MTR_7g106000 26.994 163 113 4 20 177 41 202 1.30e-11 62.0
MsG0780041180.01.T01 MTR_6g471080 29.114 158 106 5 19 172 6 161 3.69e-11 60.5
MsG0780041180.01.T01 MTR_1g057400 24.599 187 128 5 10 183 3 189 4.40e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041180.01.T01 AT3G11660 64.286 210 72 2 3 210 1 209 3.07e-101 291
MsG0780041180.01.T01 AT3G52470 59.420 207 83 1 4 210 3 208 8.30e-92 268
MsG0780041180.01.T01 AT3G44220 55.714 210 89 1 1 210 1 206 2.24e-84 249
MsG0780041180.01.T01 AT2G35960 56.398 211 90 2 1 210 1 210 5.04e-81 240
MsG0780041180.01.T01 AT5G06330 54.245 212 90 2 1 210 1 207 3.39e-75 226
MsG0780041180.01.T01 AT4G09590 48.815 211 105 2 1 209 1 210 1.95e-73 221
MsG0780041180.01.T01 AT2G35970 49.289 211 104 2 1 209 1 210 2.82e-73 221
MsG0780041180.01.T01 AT5G22200 50.935 214 97 2 1 210 1 210 1.38e-70 214
MsG0780041180.01.T01 AT5G53730 37.097 186 114 2 2 184 8 193 5.85e-44 146
MsG0780041180.01.T01 AT4G01410 38.372 172 106 0 18 189 42 213 2.59e-36 127
MsG0780041180.01.T01 AT5G05657 44.882 127 60 4 40 161 11 132 4.65e-26 98.2
MsG0780041180.01.T01 AT2G35980 35.135 148 92 4 20 164 40 186 1.94e-21 88.6
MsG0780041180.01.T01 AT5G22870 29.747 158 110 1 20 177 29 185 6.58e-21 86.7
MsG0780041180.01.T01 AT1G65690 25.275 182 135 1 21 202 70 250 1.96e-15 73.2
MsG0780041180.01.T01 AT4G05220 23.529 153 116 1 25 177 51 202 1.64e-12 64.7
MsG0780041180.01.T01 AT5G06320 26.250 160 116 2 20 177 47 206 3.13e-12 63.9
MsG0780041180.01.T01 AT1G61760 22.699 163 124 2 16 177 39 200 4.33e-12 63.5

Find 46 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAATTTGAGGTTAAGAAATT+TGG 0.185362 7:+87692195 None:intergenic
GTTTGGTCGCCGTTTGTTTA+CGG 0.302323 7:-87692027 MsG0780041180.01.T01:CDS
TTAGGACAGCCCAGATGATT+AGG 0.342172 7:+87692280 None:intergenic
TAGTAACAATCCTAATCATC+TGG 0.353742 7:-87692290 MsG0780041180.01.T01:CDS
AGAATGAAAGAAGGTTTAGA+AGG 0.355382 7:+87692255 None:intergenic
TTAAATTTGACGGTAGGGTT+CGG 0.381081 7:-87691927 MsG0780041180.01.T01:CDS
CTAAGAGAAACAGAGTTATA+TGG 0.392253 7:+87691985 None:intergenic
CGGTTCTGTAAGTAATTTGT+TGG 0.396969 7:+87692088 None:intergenic
CGTAATCCCAACGACAAAAT+CGG 0.398168 7:-87692153 MsG0780041180.01.T01:CDS
AACTGTGACTTGGAAATTTG+AGG 0.404420 7:+87692182 None:intergenic
TTGATTCTTACGTCACTTAC+CGG 0.433812 7:-87692113 MsG0780041180.01.T01:CDS
CTTGTTGTCGTTAAATTTGA+CGG 0.443892 7:-87691937 MsG0780041180.01.T01:CDS
GTTTGTGTTTCTTTCCTTTG+TGG 0.449823 7:+87692361 None:intergenic
GTCACAAACAGATGGATGTT+TGG 0.455778 7:-87692044 MsG0780041180.01.T01:CDS
CGTTACCGTTAGTCTGGTCT+TGG 0.461743 7:+87691962 None:intergenic
GCCATACCTCCGTCGTATCA+AGG 0.463364 7:-87692066 MsG0780041180.01.T01:CDS
TTGTCGTTAAATTTGACGGT+AGG 0.466414 7:-87691933 MsG0780041180.01.T01:CDS
CAAGAACGTTACCGTTAGTC+TGG 0.469229 7:+87691956 None:intergenic
TGTAAGTAATTTGTTGGCTC+CGG 0.474804 7:+87692094 None:intergenic
TGACGGTAGGGTTCGGTGGA+AGG 0.480203 7:-87691920 MsG0780041180.01.T01:CDS
GGTAGGGTTCGGTGGAAGGT+TGG 0.489694 7:-87691916 MsG0780041180.01.T01:CDS
ACGTTTGTTCCGTAAACAAA+CGG 0.495384 7:+87692018 None:intergenic
ACCTTGATACGACGGAGGTA+TGG 0.495528 7:+87692065 None:intergenic
TGTCGTTAAATTTGACGGTA+GGG 0.505477 7:-87691932 MsG0780041180.01.T01:CDS
ACGCTAATACCGTTACTCCT+TGG 0.509572 7:+87691832 None:intergenic
TGTTTACGGAACAAACGTTC+CGG 0.527883 7:-87692013 MsG0780041180.01.T01:CDS
ACATCTTGAAGAATGAAAGA+AGG 0.530173 7:+87692246 None:intergenic
AGATGATTAGGATTGTTACT+AGG 0.539987 7:+87692292 None:intergenic
ACAGAGTTATATGGAGCTAC+CGG 0.568815 7:+87691994 None:intergenic
AGTAACAATCCTAATCATCT+GGG 0.581785 7:-87692289 MsG0780041180.01.T01:CDS
AATTTGACGGTAGGGTTCGG+TGG 0.583564 7:-87691924 MsG0780041180.01.T01:CDS
GGACCAAACGTGATAAAAGC+AGG 0.589577 7:+87691853 None:intergenic
TACGTGAAGAAACTGTGACT+TGG 0.591010 7:+87692172 None:intergenic
GGTATTAGCGTCGGTGATAG+CGG 0.599815 7:-87691820 MsG0780041180.01.T01:CDS
TGTGTTTCTTTCCTTTGTGG+TGG 0.600067 7:+87692364 None:intergenic
GGTTAAGAAATTTGGAACTG+TGG 0.622409 7:+87692203 None:intergenic
GTATCAAGGTCACAAACAGA+TGG 0.622772 7:-87692052 MsG0780041180.01.T01:CDS
ACGTTTGGTCCAAGGAGTAA+CGG 0.634088 7:-87691841 MsG0780041180.01.T01:CDS
TTGATACGACGGAGGTATGG+CGG 0.638929 7:+87692068 None:intergenic
TTGTTACTAGGACGATGAAG+AGG 0.645861 7:+87692304 None:intergenic
TTAAGTATCAGATTGTTCAA+CGG 0.648896 7:-87691792 MsG0780041180.01.T01:CDS
AGGAGTAACGGTATTAGCGT+CGG 0.662943 7:-87691829 MsG0780041180.01.T01:CDS
TGTTTGTGACCTTGATACGA+CGG 0.663027 7:+87692057 None:intergenic
CTTAGCCAAGACCAGACTAA+CGG 0.666299 7:-87691967 MsG0780041180.01.T01:CDS
AAAGAGTGCAACCACCACAA+AGG 0.679737 7:-87692375 MsG0780041180.01.T01:CDS
TTGTGACCTTGATACGACGG+AGG 0.741287 7:+87692060 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATTTGAGGTTAAGAAATT+TGG + Chr7:87691966-87691985 None:intergenic 20.0%
! TTAAGTATCAGATTGTTCAA+CGG - Chr7:87692366-87692385 MsG0780041180.01.T01:CDS 25.0%
ACATCTTGAAGAATGAAAGA+AGG + Chr7:87691915-87691934 None:intergenic 30.0%
AGAATGAAAGAAGGTTTAGA+AGG + Chr7:87691906-87691925 None:intergenic 30.0%
AGATGATTAGGATTGTTACT+AGG + Chr7:87691869-87691888 None:intergenic 30.0%
AGTAACAATCCTAATCATCT+GGG - Chr7:87691869-87691888 MsG0780041180.01.T01:CDS 30.0%
CTAAGAGAAACAGAGTTATA+TGG + Chr7:87692176-87692195 None:intergenic 30.0%
TAGTAACAATCCTAATCATC+TGG - Chr7:87691868-87691887 MsG0780041180.01.T01:CDS 30.0%
! AAGAAGGTTTAGAAGGTTTT+AGG + Chr7:87691899-87691918 None:intergenic 30.0%
! CTTGTTGTCGTTAAATTTGA+CGG - Chr7:87692221-87692240 MsG0780041180.01.T01:CDS 30.0%
AACGCTTCAGAAAAATCTTC+TGG - Chr7:87691817-87691836 MsG0780041180.01.T01:CDS 35.0%
ACGCTTCAGAAAAATCTTCT+GGG - Chr7:87691818-87691837 MsG0780041180.01.T01:CDS 35.0%
ACGTTTGTTCCGTAAACAAA+CGG + Chr7:87692143-87692162 None:intergenic 35.0%
CAGGACAACGAACAAAAATA+TGG + Chr7:87692289-87692308 None:intergenic 35.0%
GTTTGTGTTTCTTTCCTTTG+TGG + Chr7:87691800-87691819 None:intergenic 35.0%
TGTCGTTAAATTTGACGGTA+GGG - Chr7:87692226-87692245 MsG0780041180.01.T01:CDS 35.0%
TTAAATTTGACGGTAGGGTT+CGG - Chr7:87692231-87692250 MsG0780041180.01.T01:CDS 35.0%
TTGATTCTTACGTCACTTAC+CGG - Chr7:87692045-87692064 MsG0780041180.01.T01:CDS 35.0%
TTGTCGTTAAATTTGACGGT+AGG - Chr7:87692225-87692244 MsG0780041180.01.T01:CDS 35.0%
! AACTGTGACTTGGAAATTTG+AGG + Chr7:87691979-87691998 None:intergenic 35.0%
! CGGTTCTGTAAGTAATTTGT+TGG + Chr7:87692073-87692092 None:intergenic 35.0%
! GGTTAAGAAATTTGGAACTG+TGG + Chr7:87691958-87691977 None:intergenic 35.0%
!! TGTAAGTAATTTGTTGGCTC+CGG + Chr7:87692067-87692086 None:intergenic 35.0%
!!! TAGATACCGATTTTGTCGTT+GGG + Chr7:87692014-87692033 None:intergenic 35.0%
ACAGAGTTATATGGAGCTAC+CGG + Chr7:87692167-87692186 None:intergenic 40.0%
CGCTTCAGAAAAATCTTCTG+GGG - Chr7:87691819-87691838 MsG0780041180.01.T01:CDS 40.0%
CGTAATCCCAACGACAAAAT+CGG - Chr7:87692005-87692024 MsG0780041180.01.T01:CDS 40.0%
GTATCAAGGTCACAAACAGA+TGG - Chr7:87692106-87692125 MsG0780041180.01.T01:CDS 40.0%
GTCACAAACAGATGGATGTT+TGG - Chr7:87692114-87692133 MsG0780041180.01.T01:CDS 40.0%
TACGTGAAGAAACTGTGACT+TGG + Chr7:87691989-87692008 None:intergenic 40.0%
TGTGTTTCTTTCCTTTGTGG+TGG + Chr7:87691797-87691816 None:intergenic 40.0%
TGTTTACGGAACAAACGTTC+CGG - Chr7:87692145-87692164 MsG0780041180.01.T01:CDS 40.0%
TGTTTGTGACCTTGATACGA+CGG + Chr7:87692104-87692123 None:intergenic 40.0%
TTGTTACTAGGACGATGAAG+AGG + Chr7:87691857-87691876 None:intergenic 40.0%
! CTTTTATCACGTTTGGTCCA+AGG - Chr7:87692309-87692328 MsG0780041180.01.T01:CDS 40.0%
!! AAGGTTGGCGCTTTTATTTC+TGG - Chr7:87692257-87692276 MsG0780041180.01.T01:CDS 40.0%
!! TGTCCTGCTTTTATCACGTT+TGG - Chr7:87692302-87692321 MsG0780041180.01.T01:CDS 40.0%
!!! GTAGATACCGATTTTGTCGT+TGG + Chr7:87692015-87692034 None:intergenic 40.0%
ACGCTAATACCGTTACTCCT+TGG + Chr7:87692329-87692348 None:intergenic 45.0%
ACGTTTGGTCCAAGGAGTAA+CGG - Chr7:87692317-87692336 MsG0780041180.01.T01:CDS 45.0%
AGGAGTAACGGTATTAGCGT+CGG - Chr7:87692329-87692348 MsG0780041180.01.T01:CDS 45.0%
CAAGAACGTTACCGTTAGTC+TGG + Chr7:87692205-87692224 None:intergenic 45.0%
CTTAGCCAAGACCAGACTAA+CGG - Chr7:87692191-87692210 MsG0780041180.01.T01:CDS 45.0%
GGACCAAACGTGATAAAAGC+AGG + Chr7:87692308-87692327 None:intergenic 45.0%
GTTTGGTCGCCGTTTGTTTA+CGG - Chr7:87692131-87692150 MsG0780041180.01.T01:CDS 45.0%
TTAGGACAGCCCAGATGATT+AGG + Chr7:87691881-87691900 None:intergenic 45.0%
! AAAGAGTGCAACCACCACAA+AGG - Chr7:87691783-87691802 MsG0780041180.01.T01:CDS 45.0%
AATTTGACGGTAGGGTTCGG+TGG - Chr7:87692234-87692253 MsG0780041180.01.T01:CDS 50.0%
ACCTTGATACGACGGAGGTA+TGG + Chr7:87692096-87692115 None:intergenic 50.0%
TTGTGACCTTGATACGACGG+AGG + Chr7:87692101-87692120 None:intergenic 50.0%
! CGTTACCGTTAGTCTGGTCT+TGG + Chr7:87692199-87692218 None:intergenic 50.0%
! TTGATACGACGGAGGTATGG+CGG + Chr7:87692093-87692112 None:intergenic 50.0%
!! GGTATTAGCGTCGGTGATAG+CGG - Chr7:87692338-87692357 MsG0780041180.01.T01:CDS 50.0%
GCCATACCTCCGTCGTATCA+AGG - Chr7:87692092-87692111 MsG0780041180.01.T01:CDS 55.0%
!! GGTAGGGTTCGGTGGAAGGT+TGG - Chr7:87692242-87692261 MsG0780041180.01.T01:CDS 60.0%
!! TGACGGTAGGGTTCGGTGGA+AGG - Chr7:87692238-87692257 MsG0780041180.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr7 gene 87691774 87692406 87691774 ID=MsG0780041180.01;Name=MsG0780041180.01
Chr7 mRNA 87691774 87692406 87691774 ID=MsG0780041180.01.T01;Parent=MsG0780041180.01;Name=MsG0780041180.01.T01;_AED=0.21;_eAED=0.21;_QI=0|-1|0|1|-1|1|1|0|210
Chr7 exon 87691774 87692406 87691774 ID=MsG0780041180.01.T01:exon:20455;Parent=MsG0780041180.01.T01
Chr7 CDS 87691774 87692406 87691774 ID=MsG0780041180.01.T01:cds;Parent=MsG0780041180.01.T01
Gene Sequence

>MsG0780041180.01.T01

ATGTCGGTAAAAGAGTGCAACCACCACAAAGGAAAGAAACACAAACGCTTCAGAAAAATCTTCTGGGGAATCATAATATTCCTCTTCATCGTCCTAGTAACAATCCTAATCATCTGGGCTGTCCTAAAACCTTCTAAACCTTCTTTCATTCTTCAAGATGTCACTGTTTACGCTTTCAACGCCACAGTTCCAAATTTCTTAACCTCAAATTTCCAAGTCACAGTTTCTTCACGTAATCCCAACGACAAAATCGGTATCTACTACGATCGACTTGATTCTTACGTCACTTACCGGAGCCAACAAATTACTTACAGAACCGCCATACCTCCGTCGTATCAAGGTCACAAACAGATGGATGTTTGGTCGCCGTTTGTTTACGGAACAAACGTTCCGGTAGCTCCATATAACTCTGTTTCTCTTAGCCAAGACCAGACTAACGGTAACGTTCTTGTTGTCGTTAAATTTGACGGTAGGGTTCGGTGGAAGGTTGGCGCTTTTATTTCTGGTCATTACCATATTTTTGTTCGTTGTCCTGCTTTTATCACGTTTGGTCCAAGGAGTAACGGTATTAGCGTCGGTGATAGCGGCGCTGTTAAGTATCAGATTGTTCAACGGTGCTCTGTCAGTGTTTAA

Protein sequence

>MsG0780041180.01.T01

MSVKECNHHKGKKHKRFRKIFWGIIIFLFIVLVTILIIWAVLKPSKPSFILQDVTVYAFNATVPNFLTSNFQVTVSSRNPNDKIGIYYDRLDSYVTYRSQQITYRTAIPPSYQGHKQMDVWSPFVYGTNVPVAPYNSVSLSQDQTNGNVLVVVKFDGRVRWKVGAFISGHYHIFVRCPAFITFGPRSNGISVGDSGAVKYQIVQRCSVSV*