AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene053111

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene053111.t1 MTR_6g003990 98.065 155 3 0 1 155 1 155 1.60e-113 318
MS.gene053111.t1 MTR_6g003990 98.305 118 2 0 38 155 1 118 3.32e-85 245
MS.gene053111.t1 MTR_7g083060 65.385 156 43 4 1 155 1 146 7.55e-68 202
MS.gene053111.t1 MTR_1g030630 59.355 155 55 3 1 155 1 147 1.29e-59 182
MS.gene053111.t1 MTR_5g025150 58.065 155 55 3 1 155 1 145 5.06e-59 180
MS.gene053111.t1 MTR_5g022620 51.266 158 73 2 1 155 1 157 1.10e-51 162
MS.gene053111.t1 MTR_8g091420 50.649 154 71 2 2 155 5 153 2.60e-49 155
MS.gene053111.t1 MTR_3g087770 48.701 154 73 3 2 155 5 152 2.37e-48 153
MS.gene053111.t1 MTR_4g073040 47.468 158 78 3 1 155 1 156 5.82e-46 147
MS.gene053111.t1 MTR_5g055020 47.742 155 73 3 1 155 1 147 9.40e-45 144
MS.gene053111.t1 MTR_3g117890 43.827 162 78 3 1 155 1 156 2.43e-44 143
MS.gene053111.t1 MTR_3g073670 44.156 154 77 3 2 155 5 149 7.78e-37 124
MS.gene053111.t1 MTR_1g078090 41.216 148 54 4 28 155 51 185 2.86e-27 100
MS.gene053111.t1 MTR_6g026890 39.416 137 72 4 28 155 14 148 6.16e-26 96.3
MS.gene053111.t1 MTR_2g091235 34.868 152 64 6 29 155 1 142 6.51e-21 83.2
MS.gene053111.t1 MTR_3g010130 67.797 59 11 2 1 58 1 52 1.78e-19 77.4
MS.gene053111.t1 MTR_6g045203 36.170 141 68 7 32 155 5 140 1.95e-13 63.9
MS.gene053111.t1 MTR_1g082650 41.892 74 40 2 24 95 2 74 3.63e-13 66.2
MS.gene053111.t1 MTR_1g092670 43.939 66 36 1 30 95 4 68 1.04e-12 60.5
MS.gene053111.t1 MTR_4g094238 38.043 92 55 2 29 120 1 90 2.03e-12 60.1
MS.gene053111.t1 MTR_4g117140 38.806 67 40 1 29 95 9 74 5.35e-11 60.1
MS.gene053111.t1 MTR_4g117220 38.806 67 40 1 29 95 9 74 5.91e-11 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.gene053111.t1 AT5G17450 64.103 156 48 4 1 155 1 149 2.28e-63 191
MS.gene053111.t1 AT1G22990 58.710 155 61 2 1 155 1 152 2.61e-61 186
MS.gene053111.t1 AT1G22990 56.129 155 60 3 1 155 1 147 2.27e-56 173
MS.gene053111.t1 AT1G71050 58.491 159 55 4 1 155 1 152 4.57e-55 170
MS.gene053111.t1 AT5G17450 67.327 101 29 3 56 155 8 105 1.04e-43 140
MS.gene053111.t1 AT5G66110 50.000 134 64 1 25 155 14 147 1.96e-43 140
MS.gene053111.t1 AT5G66110 50.000 134 64 1 25 155 14 147 1.96e-43 140
MS.gene053111.t1 AT4G39700 50.318 157 72 4 2 155 5 158 8.95e-43 139
MS.gene053111.t1 AT4G38580 43.949 157 82 2 1 155 1 153 7.19e-41 134
MS.gene053111.t1 AT4G38580 43.949 157 82 2 1 155 1 153 7.19e-41 134
MS.gene053111.t1 AT5G66110 50.820 122 55 3 38 155 1 121 9.13e-39 128
MS.gene053111.t1 AT4G35060 39.623 159 86 5 1 155 1 153 2.46e-36 123
MS.gene053111.t1 AT4G08570 38.065 155 86 4 2 155 5 150 6.53e-34 116
MS.gene053111.t1 AT4G10465 39.506 162 79 4 7 155 28 183 9.08e-28 102
MS.gene053111.t1 AT2G18196 35.897 156 67 3 20 155 36 178 2.49e-26 98.2
MS.gene053111.t1 AT1G06330 34.615 156 67 5 29 155 1 150 8.07e-23 88.6
MS.gene053111.t1 AT3G56891 35.714 154 72 6 28 155 14 166 1.13e-21 85.9
MS.gene053111.t1 AT2G18196 36.232 138 55 3 38 155 1 125 2.26e-21 84.0
MS.gene053111.t1 AT3G56891 35.417 144 66 6 38 155 1 143 2.45e-19 79.3
MS.gene053111.t1 AT1G29100 29.730 148 75 3 32 155 5 147 2.02e-13 63.9
MS.gene053111.t1 AT1G29100 28.767 146 75 3 34 155 1 141 5.57e-12 60.1
MS.gene053111.t1 AT3G02960 25.373 134 95 2 22 155 118 246 2.89e-11 60.1
MS.gene053111.t1 AT3G48970 35.507 138 75 6 31 155 4 140 4.33e-11 57.8
MS.gene053111.t1 AT3G48970 35.507 138 75 6 31 155 2 138 4.93e-11 57.4
MS.gene053111.t1 AT3G48970 35.507 138 75 6 31 155 2 138 4.93e-11 57.4
MS.gene053111.t1 AT1G66240 41.429 70 39 2 27 95 29 97 5.12e-11 56.6

Find 37 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTACATTGTCATCGTTAAAA+AGG 0.148849 6.2:-32269 None:intergenic
TTTGCGCTTGGACCTCTTAA+TGG 0.234748 6.2:-31724 None:intergenic
GGAAAGTAAGAGCTCAATTT+TGG 0.242682 6.2:+32106 MS.gene053111:CDS
AATGCAGTGACTTCATTAAA+AGG 0.253710 6.2:+31911 MS.gene053111:CDS
ATTCTCTTTAACACCTTGTT+TGG 0.261184 6.2:-32072 None:intergenic
AGAGGGTGCCCTTCTGTCAT+AGG 0.409265 6.2:-32175 None:intergenic
CGTTGTGCAGGCTGCCCCTA+TGG 0.438696 6.2:+32212 MS.gene053111:CDS
TACCTGCATTGCTTTGCGCT+TGG 0.445910 6.2:-31736 None:intergenic
TGATGATTAGATGAGGCCAT+AGG 0.474301 6.2:-32228 None:intergenic
GGACCTCTTAATGGTGGAGT+TGG 0.475031 6.2:-31715 None:intergenic
TAACCAACTCCACCATTAAG+AGG 0.490350 6.2:+31712 MS.gene053111:CDS
TCATAGGCTCCGTAGGCATA+AGG 0.499332 6.2:-32159 None:intergenic
ACTTACAGTAGTACAAAAGT+TGG 0.499673 6.2:-31688 None:intergenic
GTCCAAGCGCAAAGCAATGC+AGG 0.506452 6.2:+31734 MS.gene053111:CDS
GGTTGAGATAAAAGTGAGAA+TGG 0.506840 6.2:+31859 MS.gene053111:CDS
GATGATTAGATGAGGCCATA+GGG 0.508185 6.2:-32227 None:intergenic
TATGACAGAAGGGCACCCTC+TGG 0.508305 6.2:+32177 MS.gene053111:CDS
ACAAGTTGCTGTTCAACATA+AGG 0.511704 6.2:-32129 None:intergenic
AGGTGAACAGAAAGCAAAGC+AGG 0.515676 6.2:+32025 MS.gene053111:CDS
CAAAGCAGGGTGATAGTAAG+TGG 0.536704 6.2:+32039 MS.gene053111:CDS
CCTTCTGTCATAGGCTCCGT+AGG 0.564096 6.2:-32166 None:intergenic
ATTTGTTAGAAACGTTGTGC+AGG 0.566209 6.2:+32200 MS.gene053111:CDS
GCGCTTGGACCTCTTAATGG+TGG 0.571589 6.2:-31721 None:intergenic
GTGTACTATCCTTATGCCTA+CGG 0.578716 6.2:+32150 MS.gene053111:CDS
CAGTAGTACAAAAGTTGGAG+AGG 0.608993 6.2:-31683 None:intergenic
CTCTTCTTGATGATTAGATG+AGG 0.629560 6.2:-32235 None:intergenic
CCTACGGAGCCTATGACAGA+AGG 0.629778 6.2:+32166 MS.gene053111:CDS
ATGATTAGATGAGGCCATAG+GGG 0.651063 6.2:-32226 None:intergenic
ATGTATAGGTGTGAAATCTG+TGG 0.658222 6.2:+32002 MS.gene053111:intron
TTATCAGCTAGATTACATGA+TGG 0.658456 6.2:-32301 None:intergenic
TATAGGTGTGAAATCTGTGG+AGG 0.664803 6.2:+32005 MS.gene053111:intron
AACGTTTCTAACAAATCCAG+AGG 0.665538 6.2:-32193 None:intergenic
GGTGAACAGAAAGCAAAGCA+GGG 0.672634 6.2:+32026 MS.gene053111:CDS
CTACGGAGCCTATGACAGAA+GGG 0.679149 6.2:+32167 MS.gene053111:CDS
TGGTTATGTTGATCCAAACA+AGG 0.688407 6.2:+32059 MS.gene053111:CDS
ACGTTTCTAACAAATCCAGA+GGG 0.717248 6.2:-32192 None:intergenic
AAAGTGAGAATGGACTGTGA+TGG 0.751246 6.2:+31869 MS.gene053111:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTTTTATATAATTTCAGA+CGG + chr6.2:31838-31857 MS.gene053111:intron 10.0%
! CTATACATCAATTAATGGAA+GGG - chr6.2:31990-32009 None:intergenic 25.0%
! TACATTGTCATCGTTAAAAA+GGG - chr6.2:32271-32290 None:intergenic 25.0%
! TCATATAGTATATCCTTACT+TGG + chr6.2:31795-31814 MS.gene053111:intron 25.0%
! TTACATTGTCATCGTTAAAA+AGG - chr6.2:32272-32291 None:intergenic 25.0%
!! TTAAAGAGAATAAAAAGCAC+TGG + chr6.2:32084-32103 MS.gene053111:CDS 25.0%
!!! TAAAGAGAATAAAAAGCACT+GGG + chr6.2:32085-32104 MS.gene053111:CDS 25.0%
AATGCAGTGACTTCATTAAA+AGG + chr6.2:31911-31930 MS.gene053111:CDS 30.0%
ACTTACAGTAGTACAAAAGT+TGG - chr6.2:31691-31710 None:intergenic 30.0%
ATTCTCTTTAACACCTTGTT+TGG - chr6.2:32075-32094 None:intergenic 30.0%
CACACCTATACATCAATTAA+TGG - chr6.2:31995-32014 None:intergenic 30.0%
CCTATACATCAATTAATGGA+AGG - chr6.2:31991-32010 None:intergenic 30.0%
CCTTCCATTAATTGATGTAT+AGG + chr6.2:31988-32007 MS.gene053111:intron 30.0%
AACGTTTCTAACAAATCCAG+AGG - chr6.2:32196-32215 None:intergenic 35.0%
ACGTTTCTAACAAATCCAGA+GGG - chr6.2:32195-32214 None:intergenic 35.0%
ATGTATAGGTGTGAAATCTG+TGG + chr6.2:32002-32021 MS.gene053111:intron 35.0%
GGTTGAGATAAAAGTGAGAA+TGG + chr6.2:31859-31878 MS.gene053111:CDS 35.0%
TAGTGAGTACTAACCAAGTA+AGG - chr6.2:31811-31830 None:intergenic 35.0%
TCAATTAATGGAAGGGAGTT+AGG - chr6.2:31983-32002 None:intergenic 35.0%
TGGTTATGTTGATCCAAACA+AGG + chr6.2:32059-32078 MS.gene053111:CDS 35.0%
! ACAAGTTGCTGTTCAACATA+AGG - chr6.2:32132-32151 None:intergenic 35.0%
! ATTTGTTAGAAACGTTGTGC+AGG + chr6.2:32200-32219 MS.gene053111:CDS 35.0%
! CTCTTCTTGATGATTAGATG+AGG - chr6.2:32238-32257 None:intergenic 35.0%
! GGAAAGTAAGAGCTCAATTT+TGG + chr6.2:32106-32125 MS.gene053111:CDS 35.0%
ATGATTAGATGAGGCCATAG+GGG - chr6.2:32229-32248 None:intergenic 40.0%
CAGTAGTACAAAAGTTGGAG+AGG - chr6.2:31686-31705 None:intergenic 40.0%
GATGATTAGATGAGGCCATA+GGG - chr6.2:32230-32249 None:intergenic 40.0%
GTGTACTATCCTTATGCCTA+CGG + chr6.2:32150-32169 MS.gene053111:CDS 40.0%
TAACCAACTCCACCATTAAG+AGG + chr6.2:31712-31731 MS.gene053111:CDS 40.0%
TATAGGTGTGAAATCTGTGG+AGG + chr6.2:32005-32024 MS.gene053111:intron 40.0%
TGATGATTAGATGAGGCCAT+AGG - chr6.2:32231-32250 None:intergenic 40.0%
!! AAAGTGAGAATGGACTGTGA+TGG + chr6.2:31869-31888 MS.gene053111:CDS 40.0%
AGGTGAACAGAAAGCAAAGC+AGG + chr6.2:32025-32044 MS.gene053111:CDS 45.0%
CAAAGCAGGGTGATAGTAAG+TGG + chr6.2:32039-32058 MS.gene053111:CDS 45.0%
GGTGAACAGAAAGCAAAGCA+GGG + chr6.2:32026-32045 MS.gene053111:CDS 45.0%
TTTGCGCTTGGACCTCTTAA+TGG - chr6.2:31727-31746 None:intergenic 45.0%
CTACGGAGCCTATGACAGAA+GGG + chr6.2:32167-32186 MS.gene053111:CDS 50.0%
TACCTGCATTGCTTTGCGCT+TGG - chr6.2:31739-31758 None:intergenic 50.0%
TCATAGGCTCCGTAGGCATA+AGG - chr6.2:32162-32181 None:intergenic 50.0%
! GGACCTCTTAATGGTGGAGT+TGG - chr6.2:31718-31737 None:intergenic 50.0%
CCTACGGAGCCTATGACAGA+AGG + chr6.2:32166-32185 MS.gene053111:CDS 55.0%
CCTTCTGTCATAGGCTCCGT+AGG - chr6.2:32169-32188 None:intergenic 55.0%
GCGCTTGGACCTCTTAATGG+TGG - chr6.2:31724-31743 None:intergenic 55.0%
GTCCAAGCGCAAAGCAATGC+AGG + chr6.2:31734-31753 MS.gene053111:CDS 55.0%
!! AGAGGGTGCCCTTCTGTCAT+AGG - chr6.2:32178-32197 None:intergenic 55.0%
!! TATGACAGAAGGGCACCCTC+TGG + chr6.2:32177-32196 MS.gene053111:CDS 55.0%
CGTTGTGCAGGCTGCCCCTA+TGG + chr6.2:32212-32231 MS.gene053111:CDS 65.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 31666 32311 31666 ID=MS.gene053111
chr6.2 mRNA 31666 32311 31666 ID=MS.gene053111.t1;Parent=MS.gene053111
chr6.2 exon 31666 31755 31666 ID=MS.gene053111.t1.exon1;Parent=MS.gene053111.t1
chr6.2 CDS 31666 31755 31666 ID=cds.MS.gene053111.t1;Parent=MS.gene053111.t1
chr6.2 exon 31857 31932 31857 ID=MS.gene053111.t1.exon2;Parent=MS.gene053111.t1
chr6.2 CDS 31857 31932 31857 ID=cds.MS.gene053111.t1;Parent=MS.gene053111.t1
chr6.2 exon 32010 32311 32010 ID=MS.gene053111.t1.exon3;Parent=MS.gene053111.t1
chr6.2 CDS 32010 32311 32010 ID=cds.MS.gene053111.t1;Parent=MS.gene053111.t1
Gene Sequence

>MS.gene053111

ATGGGTGCTCTTGATTACCTCTCCAACTTTTGTACTACTGTAAGTGTAACCAACTCCACCATTAAGAGGTCCAAGCGCAAAGCAATGCAGGTAATACTATAAGAACTTCTTCTTTTTTTTTTGTAACTATCATATAGTATATCCTTACTTGGTTAGTACTCACTAAGAGTATATTTTTTATATAATTTCAGACGGTTGAGATAAAAGTGAGAATGGACTGTGATGGTTGTGAAAGAAGAGTCAGAAATGCAGTGACTTCATTAAAAGGTTAATTAATTAGTGTGTACATAATATAGTTAGTTTACAACTAATTTCCTAACTCCCTTCCATTAATTGATGTATAGGTGTGAAATCTGTGGAGGTGAACAGAAAGCAAAGCAGGGTGATAGTAAGTGGTTATGTTGATCCAAACAAGGTGTTAAAGAGAATAAAAAGCACTGGGAAAGTAAGAGCTCAATTTTGGCCTTATGTTGAACAGCAACTTGTGTACTATCCTTATGCCTACGGAGCCTATGACAGAAGGGCACCCTCTGGATTTGTTAGAAACGTTGTGCAGGCTGCCCCTATGGCCTCATCTAATCATCAAGAAGAGATACTTGTTTCCCTTTTTAACGATGACAATGTAAATGCATGTTCCATCATGTAA
Protein sequence

>MS.gene053111.t1

MGALDYLSNFCTTVSVTNSTIKRSKRKAMQTVEIKVRMDCDGCERRVRNAVTSLKGVKSVEVNRKQSRVIVSGYVDPNKVLKRIKSTGKVRAQFWPYVEQQLVYYPYAYGAYDRRAPSGFVRNVVQAAPMASSNHQEEILVSLFNDDNVNACSIM