AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene61986


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene61986.t1 MTR_4g132020 93.750 176 11 0 1 176 1 176 1.28e-120 338
MS.gene61986.t1 MTR_2g023070 51.142 219 63 7 1 176 1 218 1.72e-55 174
MS.gene61986.t1 MTR_7g101250 37.705 183 82 8 1 175 1 159 9.18e-21 84.0
MS.gene61986.t1 MTR_2g094410 55.952 84 30 2 97 174 72 154 5.01e-20 82.0
MS.gene61986.t1 MTR_4g059320 51.190 84 35 2 96 174 75 157 6.05e-18 76.6
MS.gene61986.t1 MTR_2g023390 50.602 83 36 3 97 174 72 154 1.78e-16 72.8
MS.gene61986.t1 MTR_2g086660 48.810 84 35 3 99 174 170 253 1.70e-15 72.0
MS.gene61986.t1 MTR_2g086660 48.193 83 35 3 99 173 170 252 1.35e-14 70.1
MS.gene61986.t1 MTR_3g052330 28.415 183 83 5 32 174 22 196 4.03e-14 67.4
MS.gene61986.t1 MTR_7g105130 65.217 46 13 1 132 174 170 215 7.70e-12 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene61986.t1 AT1G11700 47.087 206 74 7 1 176 1 201 2.96e-45 148
MS.gene61986.t1 AT1G61930 48.529 204 76 9 1 176 1 203 4.11e-43 142
MS.gene61986.t1 AT4G21930 46.193 197 71 9 1 176 1 183 3.28e-38 129
MS.gene61986.t1 AT3G45210 56.757 74 30 2 101 174 75 146 8.07e-21 84.0
MS.gene61986.t1 AT5G60680 35.519 183 87 4 1 174 1 161 1.62e-19 80.9
MS.gene61986.t1 AT4G21970 47.059 85 37 3 98 174 59 143 8.31e-19 79.0
MS.gene61986.t1 AT5G03230 46.591 88 34 2 99 174 78 164 2.82e-17 75.1
MS.gene61986.t1 AT2G28400 48.889 90 35 3 96 175 73 161 3.90e-17 74.7
MS.gene61986.t1 AT4G04630 48.315 89 34 3 98 174 78 166 1.22e-14 68.2
MS.gene61986.t1 AT4G26950 34.146 164 76 8 21 174 1 142 9.05e-14 65.5
MS.gene61986.t1 AT4G26950 34.146 164 76 8 21 174 1 142 9.05e-14 65.5
MS.gene61986.t1 AT3G15040 59.184 49 17 1 129 174 193 241 3.42e-12 63.2
MS.gene61986.t1 AT1G29640 47.561 82 31 4 97 174 64 137 7.10e-12 60.5

Find 62 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCATGAAGTAACCGATTTC+AGG 0.232378 8.2:-2339346 MS.gene61986:CDS
GTCGCAAGCGTTTGAGAATC+AGG 0.306206 8.2:-2339216 MS.gene61986:CDS
CAATTTCTCTCCCGGCGATT+GGG 0.307565 8.2:-2339279 MS.gene61986:CDS
GGTTCCGCCGCATGAGTATT+TGG 0.311065 8.2:-2339036 MS.gene61986:CDS
TTTGGCGCGTGGCCGGAAAA+TGG 0.357971 8.2:-2339018 MS.gene61986:CDS
CCGGAAAATGGCGGCAAATT+CGG 0.361903 8.2:-2339006 MS.gene61986:CDS
CACATCTTCTTCCCTGAAAT+CGG 0.365661 8.2:+2339334 None:intergenic
AACCGAAACGAACGGTTGTT+AGG 0.366911 8.2:-2339398 MS.gene61986:CDS
CAACCGTTCGTTTCGGTTGG+TGG 0.379141 8.2:+2339403 None:intergenic
GGTGGAATCGTTGCATGATA+TGG 0.383426 8.2:-2339081 MS.gene61986:CDS
GGGGTGGGTCGGACCTTAAA+AGG 0.389495 8.2:-2338975 MS.gene61986:CDS
TTCCTAACAACCGTTCGTTT+CGG 0.395593 8.2:+2339396 None:intergenic
GTGCTGATGTTGCAACGTTC+CGG 0.398619 8.2:+2339147 None:intergenic
TCAATTTCTCTCCCGGCGAT+TGG 0.413239 8.2:-2339280 MS.gene61986:CDS
GACGGGTTCGTGATGCTGTT+TGG 0.413527 8.2:-2338941 MS.gene61986:CDS
CTCCAATCCGGCACGTTCAC+CGG 0.413829 8.2:+2339125 None:intergenic
CTCAACCATCGAACCCGGTT+TGG 0.416497 8.2:+2338916 None:intergenic
GATGCTGTTTGGAACCAAAC+CGG 0.441060 8.2:-2338930 MS.gene61986:CDS
ATGTTGCAACGTTCCGGTAC+TGG 0.447319 8.2:+2339153 None:intergenic
CACCGGTGAACGTGCCGGAT+TGG 0.454006 8.2:-2339127 MS.gene61986:CDS
GAATCGTTCACCACCAGTAC+CGG 0.485009 8.2:-2339166 MS.gene61986:CDS
ATGAGTATTTGGCGCGTGGC+CGG 0.490622 8.2:-2339025 MS.gene61986:CDS
ATGCTGTTTGGAACCAAACC+GGG 0.500659 8.2:-2338929 MS.gene61986:CDS
CGGAGTATCTTACTCCAATC+CGG 0.504693 8.2:+2339113 None:intergenic
TAAGATACTCCGAGTTGAAT+CGG 0.506960 8.2:-2339102 MS.gene61986:CDS
TCATGAAGTAACCGATTTCA+GGG 0.508081 8.2:-2339345 MS.gene61986:CDS
TAACAACCGTTCGTTTCGGT+TGG 0.515395 8.2:+2339400 None:intergenic
TGCGCGTGAATCCCAATCGC+CGG 0.518977 8.2:+2339268 None:intergenic
GATTCTCAAACGCTTGCGAC+AGG 0.525300 8.2:+2339219 None:intergenic
AAAAGGCCGTGATTTGAGAC+GGG 0.530895 8.2:-2338958 MS.gene61986:CDS
TATGGATGATGATAACGAAT+CGG 0.540008 8.2:-2339063 MS.gene61986:CDS
TGGAACCAAACCGGGTTCGA+TGG 0.549508 8.2:-2338921 MS.gene61986:CDS
CACAACGTCAATTTCTCTCC+CGG 0.549711 8.2:-2339287 MS.gene61986:CDS
TAAAAGGCCGTGATTTGAGA+CGG 0.552056 8.2:-2338959 MS.gene61986:CDS
GCGCGTGAATCCCAATCGCC+GGG 0.553493 8.2:+2339269 None:intergenic
GGTTACTTCATGAGTGGTGG+TGG 0.557686 8.2:+2339355 None:intergenic
ACGCTTGCGACAGGCCGCCG+TGG 0.563075 8.2:+2339228 None:intergenic
GTCGCTAAGTACCATGGCGA+AGG 0.565479 8.2:-2339438 None:intergenic
CACGAACCCGTCTCAAATCA+CGG 0.568944 8.2:+2338952 None:intergenic
TGATGATAACGAATCGGAGA+TGG 0.569605 8.2:-2339057 MS.gene61986:CDS
CAAACCGGGTTCGATGGTTG+AGG 0.576026 8.2:-2338915 None:intergenic
GTGGTCACGATCTTCAACCA+TGG 0.577498 8.2:+2339307 None:intergenic
CGCGCCAAATACTCATGCGG+CGG 0.577795 8.2:+2339032 None:intergenic
ATCAGCACCGGTGAACGTGC+CGG 0.584228 8.2:-2339132 MS.gene61986:CDS
TCCACCTCAACCATCGAACC+CGG 0.586804 8.2:+2338911 None:intergenic
GGCGCGTGGCCGGAAAATGG+CGG 0.591649 8.2:-2339015 MS.gene61986:CDS
GAATTTGCGACCCTTCGCCA+TGG 0.599300 8.2:+2339427 None:intergenic
CCGCATGAGTATTTGGCGCG+TGG 0.607155 8.2:-2339029 MS.gene61986:CDS
GAACGTTGCAACATCAGCAC+CGG 0.627010 8.2:-2339144 MS.gene61986:CDS
GGAAGAAGATGTGTGGTCCA+TGG 0.635452 8.2:-2339324 MS.gene61986:CDS
ACGATTCCACCGATTCAACT+CGG 0.637845 8.2:+2339093 None:intergenic
TCGCTAAGTACCATGGCGAA+GGG 0.643376 8.2:-2339437 None:intergenic
CCACGCGCCAAATACTCATG+CGG 0.647845 8.2:+2339029 None:intergenic
ATCGGTTACTTCATGAGTGG+TGG 0.648620 8.2:+2339352 None:intergenic
CATTCACGTCGTCACAACCA+CGG 0.652333 8.2:-2339245 MS.gene61986:CDS
CGGGAGAGAAATTGACGTTG+TGG 0.653823 8.2:+2339288 None:intergenic
TCACCACCAACCGAAACGAA+CGG 0.658770 8.2:-2339406 MS.gene61986:CDS
TTGCAACGTTCCGGTACTGG+TGG 0.660475 8.2:+2339156 None:intergenic
GATACTCCGAGTTGAATCGG+TGG 0.676763 8.2:-2339099 MS.gene61986:CDS
GAAATCGGTTACTTCATGAG+TGG 0.682994 8.2:+2339349 None:intergenic
ATTTCAGGGAAGAAGATGTG+TGG 0.693930 8.2:-2339331 MS.gene61986:CDS
TCACGTCGTCACAACCACGG+CGG 0.789082 8.2:-2339242 MS.gene61986:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TATGGATGATGATAACGAAT+CGG - chr8.2:2339279-2339298 MS.gene61986:CDS 30.0%
! TAAGATACTCCGAGTTGAAT+CGG - chr8.2:2339240-2339259 MS.gene61986:CDS 35.0%
! TCATGAAGTAACCGATTTCA+GGG - chr8.2:2338997-2339016 MS.gene61986:CDS 35.0%
ATTTCAGGGAAGAAGATGTG+TGG - chr8.2:2339011-2339030 MS.gene61986:CDS 40.0%
CACATCTTCTTCCCTGAAAT+CGG + chr8.2:2339011-2339030 None:intergenic 40.0%
GAAATCGGTTACTTCATGAG+TGG + chr8.2:2338996-2339015 None:intergenic 40.0%
TAAAAGGCCGTGATTTGAGA+CGG - chr8.2:2339383-2339402 MS.gene61986:CDS 40.0%
TTCCTAACAACCGTTCGTTT+CGG + chr8.2:2338949-2338968 None:intergenic 40.0%
! CTCATGAAGTAACCGATTTC+AGG - chr8.2:2338996-2339015 MS.gene61986:CDS 40.0%
! TCTCAAATCACGGCCTTTTA+AGG + chr8.2:2339383-2339402 None:intergenic 40.0%
! TGATGATAACGAATCGGAGA+TGG - chr8.2:2339285-2339304 MS.gene61986:CDS 40.0%
AACCGAAACGAACGGTTGTT+AGG - chr8.2:2338944-2338963 MS.gene61986:CDS 45.0%
ATCGGTTACTTCATGAGTGG+TGG + chr8.2:2338993-2339012 None:intergenic 45.0%
CACAACGTCAATTTCTCTCC+CGG - chr8.2:2339055-2339074 MS.gene61986:CDS 45.0%
GGTGGAATCGTTGCATGATA+TGG - chr8.2:2339261-2339280 MS.gene61986:CDS 45.0%
TAACAACCGTTCGTTTCGGT+TGG + chr8.2:2338945-2338964 None:intergenic 45.0%
! AAAAGGCCGTGATTTGAGAC+GGG - chr8.2:2339384-2339403 MS.gene61986:CDS 45.0%
! AAATTCGGTTTTCGAAGGGG+TGG - chr8.2:2339351-2339370 MS.gene61986:CDS 45.0%
! AATTCGGTTTTCGAAGGGGT+GGG - chr8.2:2339352-2339371 MS.gene61986:CDS 45.0%
! ATGCTGTTTGGAACCAAACC+GGG - chr8.2:2339413-2339432 MS.gene61986:CDS 45.0%
! CGGAGTATCTTACTCCAATC+CGG + chr8.2:2339232-2339251 None:intergenic 45.0%
! CGGCAAATTCGGTTTTCGAA+GGG - chr8.2:2339347-2339366 MS.gene61986:CDS 45.0%
! GATGCTGTTTGGAACCAAAC+CGG - chr8.2:2339412-2339431 MS.gene61986:CDS 45.0%
! GGCAAATTCGGTTTTCGAAG+GGG - chr8.2:2339348-2339367 MS.gene61986:CDS 45.0%
!! ACGATTCCACCGATTCAACT+CGG + chr8.2:2339252-2339271 None:intergenic 45.0%
ATGTTGCAACGTTCCGGTAC+TGG + chr8.2:2339192-2339211 None:intergenic 50.0%
CAATTTCTCTCCCGGCGATT+GGG - chr8.2:2339063-2339082 MS.gene61986:CDS 50.0%
CACGAACCCGTCTCAAATCA+CGG + chr8.2:2339393-2339412 None:intergenic 50.0%
CATTCACGTCGTCACAACCA+CGG - chr8.2:2339097-2339116 MS.gene61986:CDS 50.0%
CCGGAAAATGGCGGCAAATT+CGG - chr8.2:2339336-2339355 MS.gene61986:CDS 50.0%
CGGGAGAGAAATTGACGTTG+TGG + chr8.2:2339057-2339076 None:intergenic 50.0%
GAACGTTGCAACATCAGCAC+CGG - chr8.2:2339198-2339217 MS.gene61986:CDS 50.0%
GAATCGTTCACCACCAGTAC+CGG - chr8.2:2339176-2339195 MS.gene61986:CDS 50.0%
GATTCTCAAACGCTTGCGAC+AGG + chr8.2:2339126-2339145 None:intergenic 50.0%
GGAAGAAGATGTGTGGTCCA+TGG - chr8.2:2339018-2339037 MS.gene61986:CDS 50.0%
GGTTACTTCATGAGTGGTGG+TGG + chr8.2:2338990-2339009 None:intergenic 50.0%
GTCGCAAGCGTTTGAGAATC+AGG - chr8.2:2339126-2339145 MS.gene61986:CDS 50.0%
GTGGTCACGATCTTCAACCA+TGG + chr8.2:2339038-2339057 None:intergenic 50.0%
TCAATTTCTCTCCCGGCGAT+TGG - chr8.2:2339062-2339081 MS.gene61986:CDS 50.0%
TCACCACCAACCGAAACGAA+CGG - chr8.2:2338936-2338955 MS.gene61986:CDS 50.0%
! GATACTCCGAGTTGAATCGG+TGG - chr8.2:2339243-2339262 MS.gene61986:CDS 50.0%
! GCGGCAAATTCGGTTTTCGA+AGG - chr8.2:2339346-2339365 MS.gene61986:CDS 50.0%
! GTGCTGATGTTGCAACGTTC+CGG + chr8.2:2339198-2339217 None:intergenic 50.0%
!! CCGAATTTGCCGCCATTTTC+CGG + chr8.2:2339339-2339358 None:intergenic 50.0%
ATGAGTATTTGGCGCGTGGC+CGG - chr8.2:2339317-2339336 MS.gene61986:CDS 55.0%
CAACCGTTCGTTTCGGTTGG+TGG + chr8.2:2338942-2338961 None:intergenic 55.0%
CCACGCGCCAAATACTCATG+CGG + chr8.2:2339316-2339335 None:intergenic 55.0%
GGTTCCGCCGCATGAGTATT+TGG - chr8.2:2339306-2339325 MS.gene61986:CDS 55.0%
TGGAACCAAACCGGGTTCGA+TGG - chr8.2:2339421-2339440 MS.gene61986:CDS 55.0%
! GACGGGTTCGTGATGCTGTT+TGG - chr8.2:2339401-2339420 MS.gene61986:CDS 55.0%
! TTGCAACGTTCCGGTACTGG+TGG + chr8.2:2339189-2339208 None:intergenic 55.0%
CCGCATGAGTATTTGGCGCG+TGG - chr8.2:2339313-2339332 MS.gene61986:CDS 60.0%
CGCGCCAAATACTCATGCGG+CGG + chr8.2:2339313-2339332 None:intergenic 60.0%
CTCCAATCCGGCACGTTCAC+CGG + chr8.2:2339220-2339239 None:intergenic 60.0%
GGGGTGGGTCGGACCTTAAA+AGG - chr8.2:2339367-2339386 MS.gene61986:CDS 60.0%
TCACGTCGTCACAACCACGG+CGG - chr8.2:2339100-2339119 MS.gene61986:CDS 60.0%
TGCGCGTGAATCCCAATCGC+CGG + chr8.2:2339077-2339096 None:intergenic 60.0%
TTTGGCGCGTGGCCGGAAAA+TGG - chr8.2:2339324-2339343 MS.gene61986:CDS 60.0%
! CGGTTTTCGAAGGGGTGGGT+CGG - chr8.2:2339356-2339375 MS.gene61986:CDS 60.0%
!! ATCAGCACCGGTGAACGTGC+CGG - chr8.2:2339210-2339229 MS.gene61986:CDS 60.0%
CACCGGTGAACGTGCCGGAT+TGG - chr8.2:2339215-2339234 MS.gene61986:CDS 65.0%
GCGCGTGAATCCCAATCGCC+GGG + chr8.2:2339076-2339095 None:intergenic 65.0%
GGCGCGTGGCCGGAAAATGG+CGG - chr8.2:2339327-2339346 MS.gene61986:CDS 70.0%
ACGCTTGCGACAGGCCGCCG+TGG + chr8.2:2339117-2339136 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 2338917 2339447 2338917 ID=MS.gene61986
chr8.2 mRNA 2338917 2339447 2338917 ID=MS.gene61986.t1;Parent=MS.gene61986
chr8.2 exon 2338917 2339447 2338917 ID=MS.gene61986.t1.exon1;Parent=MS.gene61986.t1
chr8.2 CDS 2338917 2339447 2338917 ID=cds.MS.gene61986.t1;Parent=MS.gene61986.t1
Gene Sequence

>MS.gene61986

ATGGCGAAGGGTCGCAAATTCACCACCAACCGAAACGAACGGTTGTTAGGAACAAACTATATTCAAAGCTCCACCACCACTCATGAAGTAACCGATTTCAGGGAAGAAGATGTGTGGTCCATGGTTGAAGATCGTGACCACAACGTCAATTTCTCTCCCGGCGATTGGGATTCACGCGCACATTCACGTCGTCACAACCACGGCGGCCTGTCGCAAGCGTTTGAGAATCAGGTTAGTGATGTTGCGACTATGTCGTCGAGAATCGTTCACCACCAGTACCGGAACGTTGCAACATCAGCACCGGTGAACGTGCCGGATTGGAGTAAGATACTCCGAGTTGAATCGGTGGAATCGTTGCATGATATGGATGATGATAACGAATCGGAGATGGTTCCGCCGCATGAGTATTTGGCGCGTGGCCGGAAAATGGCGGCAAATTCGGTTTTCGAAGGGGTGGGTCGGACCTTAAAAGGCCGTGATTTGAGACGGGTTCGTGATGCTGTTTGGAACCAAACCGGGTTCGATGGTTGA

Protein sequence

>MS.gene61986.t1

MAKGRKFTTNRNERLLGTNYIQSSTTTHEVTDFREEDVWSMVEDRDHNVNFSPGDWDSRAHSRRHNHGGLSQAFENQVSDVATMSSRIVHHQYRNVATSAPVNVPDWSKILRVESVESLHDMDDDNESEMVPPHEYLARGRKMAANSVFEGVGRTLKGRDLRRVRDAVWNQTGFDG