AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene79803


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene79803.t1 MTR_6g471080 91.943 211 16 1 1 210 1 211 1.48e-128 361
MS.gene79803.t1 MTR_6g471090 78.537 205 43 1 3 206 6 210 2.20e-113 322
MS.gene79803.t1 MTR_6g071410 73.113 212 51 2 3 208 7 218 1.21e-103 298
MS.gene79803.t1 MTR_6g070890 73.113 212 51 2 3 208 7 218 1.21e-103 298
MS.gene79803.t1 MTR_6g070900 70.192 208 60 2 3 208 7 214 8.43e-96 278
MS.gene79803.t1 MTR_6g071400 70.192 208 60 2 3 208 7 214 8.43e-96 278
MS.gene79803.t1 MTR_6g071710 69.737 152 45 1 58 208 11 162 5.60e-66 201
MS.gene79803.t1 MTR_2g048270 58.553 152 55 5 45 195 2 146 5.87e-56 176
MS.gene79803.t1 MTR_1g057270 43.750 160 80 7 24 180 74 226 4.65e-32 117
MS.gene79803.t1 MTR_4g119428 40.000 180 99 7 17 194 65 237 2.92e-30 112
MS.gene79803.t1 MTR_7g106030 32.683 205 113 8 6 194 33 228 1.28e-28 107
MS.gene79803.t1 MTR_7g106010 34.759 187 112 6 11 193 43 223 5.28e-28 105
MS.gene79803.t1 MTR_7g105870 43.590 156 81 6 21 174 57 207 5.88e-26 100
MS.gene79803.t1 MTR_7g106000 32.086 187 105 8 5 176 31 210 2.24e-23 93.6
MS.gene79803.t1 MTR_7g105970 31.217 189 108 8 5 178 31 212 5.09e-23 92.8
MS.gene79803.t1 MTR_1g057400 29.808 208 117 10 5 194 10 206 2.90e-21 87.8
MS.gene79803.t1 MTR_6g453010 36.628 172 83 5 11 176 17 168 1.34e-19 82.8
MS.gene79803.t1 MTR_2g011350 34.884 86 55 1 20 104 37 122 1.74e-14 69.3
MS.gene79803.t1 MTR_7g106050 28.947 152 101 4 6 154 19 166 2.65e-14 69.3
MS.gene79803.t1 MTR_3g063310 34.074 135 76 5 21 148 83 211 2.15e-13 67.4
MS.gene79803.t1 MTR_1g057290 33.918 171 98 8 30 193 51 213 6.47e-13 65.5
MS.gene79803.t1 MTR_1g019920 42.105 76 38 3 19 89 3 77 3.90e-12 60.5
MS.gene79803.t1 MTR_2g087000 25.568 176 118 4 9 180 52 218 8.31e-12 62.8
MS.gene79803.t1 MTR_2g086790 24.561 171 112 5 4 161 16 182 3.01e-11 60.8
MS.gene79803.t1 MTR_1g057420 31.884 138 88 5 26 161 39 172 4.19e-11 60.5
MS.gene79803.t1 MTR_5g076170 31.496 127 84 3 24 148 97 222 6.82e-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
MS.gene79803.t1 AT2G35980 43.750 176 82 6 12 174 35 206 4.20e-36 126
MS.gene79803.t1 AT2G35460 34.921 189 113 7 7 193 54 234 3.42e-30 111
MS.gene79803.t1 AT5G06320 38.172 186 104 8 11 194 52 228 5.68e-30 110
MS.gene79803.t1 AT3G11650 31.937 191 122 6 4 193 52 235 8.51e-28 105
MS.gene79803.t1 AT3G52470 34.545 110 70 2 4 111 16 125 2.09e-16 74.7
MS.gene79803.t1 AT1G32270 29.677 155 102 5 28 180 1 150 6.48e-15 72.4
MS.gene79803.t1 AT1G32270 29.677 155 102 5 28 180 1 150 1.46e-14 72.0
MS.gene79803.t1 AT4G09590 29.139 151 102 5 6 154 21 168 5.47e-14 68.6
MS.gene79803.t1 AT3G11660 29.940 167 99 6 4 161 15 172 5.70e-14 68.2
MS.gene79803.t1 AT2G35960 31.469 143 92 5 21 161 35 173 5.32e-13 65.5
MS.gene79803.t1 AT2G35970 29.139 151 102 5 6 154 21 168 1.09e-12 64.7
MS.gene79803.t1 AT1G65690 30.872 149 96 6 9 154 71 215 4.81e-12 63.5
MS.gene79803.t1 AT3G44220 29.932 147 95 6 16 160 31 171 2.74e-11 60.8

Find 37 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCACCACTGCTACATCTTC+TGG 0.249772 6.2:-73016384 None:intergenic
CTTCTGGGACTAAAAGAAAA+TGG 0.303320 6.2:-73016368 None:intergenic
TCTTGGGATTTATAAAGATT+TGG 0.312711 6.2:+73016211 MS.gene79803:CDS
TAATCACCATCATCGTCTTC+TGG 0.338455 6.2:+73015871 MS.gene79803:CDS
TAGCAGTGGTGATTTCTTTA+CGG 0.343521 6.2:+73016394 MS.gene79803:CDS
ATTCGAATTAGAGCTAAGTA+TGG 0.426821 6.2:+73016248 MS.gene79803:CDS
AAACGACGACACTGCAGAAC+CGG 0.436027 6.2:-73016302 None:intergenic
TGGTGATGATAAGTTACTAT+TGG 0.447132 6.2:-73016348 None:intergenic
GACTGGTCGGTTTAATCCAC+CGG 0.447589 6.2:+73016283 MS.gene79803:CDS
ACGTGAAATTTCACACTTGA+GGG 0.456152 6.2:-73015906 None:intergenic
ATAGACTATGATGTTGTTGT+TGG 0.461075 6.2:-73016012 None:intergenic
TCACCACTGCTACATCTTCT+GGG 0.464477 6.2:-73016383 None:intergenic
TAGACTATGATGTTGTTGTT+GGG 0.464761 6.2:-73016011 None:intergenic
ACCTCACCACAAATATGGGC+TGG 0.466850 6.2:+73015802 None:intergenic
ACTTTGACACCCTTTGATCA+AGG 0.484433 6.2:+73016089 MS.gene79803:CDS
TATTCTGAAGAGACACGTCT+TGG 0.496905 6.2:+73016194 MS.gene79803:CDS
GGAAATTCTATCATCAAACT+TGG 0.500531 6.2:+73016152 MS.gene79803:CDS
CTTGGACCTATCGAATTCAA+AGG 0.500883 6.2:+73016131 MS.gene79803:CDS
TATGGAAGCTTCTATAAGAC+TGG 0.528774 6.2:+73016266 MS.gene79803:CDS
ATTCTGAAGAGACACGTCTT+GGG 0.539671 6.2:+73016195 MS.gene79803:CDS
GAAGAATCAAGGCGATTGCT+TGG 0.539774 6.2:+73016039 MS.gene79803:CDS
AGTCTATTATCGAAGAATCA+AGG 0.541807 6.2:+73016028 MS.gene79803:CDS
AGACTATGATGTTGTTGTTG+GGG 0.552465 6.2:-73016010 None:intergenic
TTCGATAGGTCCAAGAAAAG+TGG 0.557190 6.2:-73016123 None:intergenic
TTGCTGCTCTATTTATATCA+CGG 0.562755 6.2:-73016418 None:intergenic
TACGTGAAATTTCACACTTG+AGG 0.573509 6.2:-73015907 None:intergenic
GAATTTCCTTTGAATTCGAT+AGG 0.573832 6.2:-73016137 None:intergenic
CCTCACCACAAATATGGGCT+GGG 0.580818 6.2:+73015803 None:intergenic
GAAGCTTCTATAAGACTGGT+CGG 0.586174 6.2:+73016270 MS.gene79803:CDS
TATTATCCAGAAGACGATGA+TGG 0.595315 6.2:-73015877 None:intergenic
AATATAAGTTGCTGTTTGTG+AGG 0.598826 6.2:-73015956 None:intergenic
GCTGTTTGTGAGGTTGAACT+CGG 0.599586 6.2:-73015946 None:intergenic
GAACTCGGTGAGAGTTGCAT+CGG 0.601986 6.2:-73015931 None:intergenic
CGACGACACTGCAGAACCGG+TGG 0.610886 6.2:-73016299 None:intergenic
AGTCCCAGAAGATGTAGCAG+TGG 0.649919 6.2:+73016380 MS.gene79803:CDS
CGATGATGGTGATTACGAAG+AGG 0.658850 6.2:-73015863 None:intergenic
CTATTGGAAGAAGAAATCAA+AGG 0.724031 6.2:-73016332 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TCTTGGGATTTATAAAGATT+TGG + chr6.2:73016211-73016230 MS.gene79803:CDS 25.0%
AGTCTATTATCGAAGAATCA+AGG + chr6.2:73016028-73016047 MS.gene79803:CDS 30.0%
ATAGACTATGATGTTGTTGT+TGG - chr6.2:73016015-73016034 None:intergenic 30.0%
ATTCGAATTAGAGCTAAGTA+TGG + chr6.2:73016248-73016267 MS.gene79803:CDS 30.0%
CTATTGGAAGAAGAAATCAA+AGG - chr6.2:73016335-73016354 None:intergenic 30.0%
GAATTTCCTTTGAATTCGAT+AGG - chr6.2:73016140-73016159 None:intergenic 30.0%
GGAAATTCTATCATCAAACT+TGG + chr6.2:73016152-73016171 MS.gene79803:CDS 30.0%
TTGCTGCTCTATTTATATCA+CGG - chr6.2:73016421-73016440 None:intergenic 30.0%
! ATTTTTGTGTCCTTGATCAA+AGG - chr6.2:73016102-73016121 None:intergenic 30.0%
! TAGACTATGATGTTGTTGTT+GGG - chr6.2:73016014-73016033 None:intergenic 30.0%
! TGGTGATGATAAGTTACTAT+TGG - chr6.2:73016351-73016370 None:intergenic 30.0%
! TTTTTGTGTCCTTGATCAAA+GGG - chr6.2:73016101-73016120 None:intergenic 30.0%
!! AATATAAGTTGCTGTTTGTG+AGG - chr6.2:73015959-73015978 None:intergenic 30.0%
!! CACAAAAATACCACTTTTCT+TGG + chr6.2:73016113-73016132 MS.gene79803:CDS 30.0%
ACGTGAAATTTCACACTTGA+GGG - chr6.2:73015909-73015928 None:intergenic 35.0%
TACGTGAAATTTCACACTTG+AGG - chr6.2:73015910-73015929 None:intergenic 35.0%
TAGCAGTGGTGATTTCTTTA+CGG + chr6.2:73016394-73016413 MS.gene79803:CDS 35.0%
TATGGAAGCTTCTATAAGAC+TGG + chr6.2:73016266-73016285 MS.gene79803:CDS 35.0%
TATTATCCAGAAGACGATGA+TGG - chr6.2:73015880-73015899 None:intergenic 35.0%
! AGACTATGATGTTGTTGTTG+GGG - chr6.2:73016013-73016032 None:intergenic 35.0%
!! CTTCTGGGACTAAAAGAAAA+TGG - chr6.2:73016371-73016390 None:intergenic 35.0%
ACTTTGACACCCTTTGATCA+AGG + chr6.2:73016089-73016108 MS.gene79803:CDS 40.0%
CTTGGACCTATCGAATTCAA+AGG + chr6.2:73016131-73016150 MS.gene79803:CDS 40.0%
GAAGCTTCTATAAGACTGGT+CGG + chr6.2:73016270-73016289 MS.gene79803:CDS 40.0%
TAATCACCATCATCGTCTTC+TGG + chr6.2:73015871-73015890 MS.gene79803:CDS 40.0%
TTCGATAGGTCCAAGAAAAG+TGG - chr6.2:73016126-73016145 None:intergenic 40.0%
! ATTCTGAAGAGACACGTCTT+GGG + chr6.2:73016195-73016214 MS.gene79803:CDS 40.0%
! TATTCTGAAGAGACACGTCT+TGG + chr6.2:73016194-73016213 MS.gene79803:CDS 40.0%
ATCACCACTGCTACATCTTC+TGG - chr6.2:73016387-73016406 None:intergenic 45.0%
GAAGAATCAAGGCGATTGCT+TGG + chr6.2:73016039-73016058 MS.gene79803:CDS 45.0%
GCTGTTTGTGAGGTTGAACT+CGG - chr6.2:73015949-73015968 None:intergenic 45.0%
TCACCACTGCTACATCTTCT+GGG - chr6.2:73016386-73016405 None:intergenic 45.0%
! CGATGATGGTGATTACGAAG+AGG - chr6.2:73015866-73015885 None:intergenic 45.0%
AAACGACGACACTGCAGAAC+CGG - chr6.2:73016305-73016324 None:intergenic 50.0%
AGTCCCAGAAGATGTAGCAG+TGG + chr6.2:73016380-73016399 MS.gene79803:CDS 50.0%
! GAACTCGGTGAGAGTTGCAT+CGG - chr6.2:73015934-73015953 None:intergenic 50.0%
! GACTGGTCGGTTTAATCCAC+CGG + chr6.2:73016283-73016302 MS.gene79803:CDS 50.0%
CGACGACACTGCAGAACCGG+TGG - chr6.2:73016302-73016321 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 73015816 73016448 73015816 ID=MS.gene79803
chr6.2 mRNA 73015816 73016448 73015816 ID=MS.gene79803.t1;Parent=MS.gene79803
chr6.2 exon 73015816 73016448 73015816 ID=MS.gene79803.t1.exon1;Parent=MS.gene79803.t1
chr6.2 CDS 73015816 73016448 73015816 ID=cds.MS.gene79803.t1;Parent=MS.gene79803.t1
Gene Sequence

>MS.gene79803

ATGGGCTGGGTCGCACGCATTTGTTGCACATTATGTTGTCTTATAGTCCTCTTCGTAATCACCATCATCGTCTTCTGGATAATAGTCTCTCCCTCAAGTGTGAAATTTCACGTAACCGATGCAACTCTCACCGAGTTCAACCTCACAAACAGCAACTTATATTACAATTTCAAAGTGAATGTCACAGCAAGAAACCCCAACAACAACATCATAGTCTATTATCGAAGAATCAAGGCGATTGCTTGGTACAAAGACAATGATTTTAGTCATATAACTTTGACACCCTTTGATCAAGGACACAAAAATACCACTTTTCTTGGACCTATCGAATTCAAAGGAAATTCTATCATCAAACTTGGACGTCAACAACTTAACGAGTATTCTGAAGAGACACGTCTTGGGATTTATAAAGATTTGGCTGTTGATTTTGATATTCGAATTAGAGCTAAGTATGGAAGCTTCTATAAGACTGGTCGGTTTAATCCACCGGTTCTGCAGTGTCGTCGTTTGAGAGTTCCTTTGATTTCTTCTTCCAATAGTAACTTATCATCACCATTTTCTTTTAGTCCCAGAAGATGTAGCAGTGGTGATTTCTTTACGGACCGTGATATAAATAGAGCAGCAACAGTTTGA

Protein sequence

>MS.gene79803.t1

MGWVARICCTLCCLIVLFVITIIVFWIIVSPSSVKFHVTDATLTEFNLTNSNLYYNFKVNVTARNPNNNIIVYYRRIKAIAWYKDNDFSHITLTPFDQGHKNTTFLGPIEFKGNSIIKLGRQQLNEYSEETRLGIYKDLAVDFDIRIRAKYGSFYKTGRFNPPVLQCRRLRVPLISSSNSNLSSPFSFSPRRCSSGDFFTDRDINRAATV