AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene81213

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81213.t1 MTR_5g097500 78.656 253 25 1 1 224 1 253 6.00e-144 404
MS.gene81213.t1 MTR_5g097490 49.442 269 85 3 1 218 1 269 3.26e-80 245
MS.gene81213.t1 MTR_4g021780 71.717 99 27 1 75 173 15 112 2.97e-48 155
MS.gene81213.t1 MTR_3g056100 30.601 183 86 2 75 216 235 417 8.60e-20 87.8
MS.gene81213.t1 MTR_3g056100 30.601 183 86 2 75 216 91 273 9.87e-20 87.4
MS.gene81213.t1 MTR_4g013260 34.091 176 80 6 77 216 176 351 1.40e-19 87.0
MS.gene81213.t1 MTR_7g071120 31.868 182 83 5 76 216 158 339 2.25e-19 86.7
MS.gene81213.t1 MTR_5g094430 30.726 179 78 3 84 216 201 379 2.81e-19 86.3
MS.gene81213.t1 MTR_5g094430 30.726 179 78 3 84 216 89 267 4.58e-19 85.5
MS.gene81213.t1 MTR_5g094430 30.726 179 78 3 84 216 67 245 5.03e-19 85.1
MS.gene81213.t1 MTR_3g056100 27.551 196 88 3 75 216 91 286 1.07e-17 81.6
MS.gene81213.t1 MTR_5g074400 29.167 192 77 4 84 216 244 435 1.40e-17 81.6
MS.gene81213.t1 MTR_4g082580 33.108 148 84 5 84 216 146 293 3.65e-16 77.0
MS.gene81213.t1 MTR_3g031220 28.571 182 81 4 84 216 199 380 3.70e-16 77.0
MS.gene81213.t1 MTR_3g031220 28.571 182 81 4 84 216 199 380 4.92e-16 77.0
MS.gene81213.t1 MTR_7g100510 28.342 187 80 5 84 216 190 376 1.48e-15 75.5
MS.gene81213.t1 MTR_7g080020 43.836 73 38 1 83 152 280 352 1.63e-13 69.7
MS.gene81213.t1 MTR_3g056100 41.429 70 41 0 75 144 235 304 2.40e-13 68.9
MS.gene81213.t1 MTR_3g009470 45.763 59 32 0 83 141 280 338 1.33e-12 67.0
MS.gene81213.t1 MTR_3g009470 45.763 59 32 0 83 141 280 338 1.73e-12 66.6
MS.gene81213.t1 MTR_7g080000 43.548 62 35 0 83 144 234 295 1.84e-12 66.6
MS.gene81213.t1 MTR_7g011820 45.763 59 32 0 84 142 229 287 1.98e-12 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81213.t1 AT2G04880 29.464 224 104 3 47 216 75 298 9.21e-24 99.0
MS.gene81213.t1 AT5G07100 33.544 158 93 5 65 216 5 156 1.81e-19 84.0
MS.gene81213.t1 AT5G07100 33.544 158 93 5 65 216 5 156 1.81e-19 84.0
MS.gene81213.t1 AT5G07100 33.544 158 93 5 65 216 5 156 1.81e-19 84.0
MS.gene81213.t1 AT5G07100 33.544 158 93 5 65 216 5 156 1.81e-19 84.0
MS.gene81213.t1 AT5G07100 33.544 158 93 5 65 216 98 249 5.74e-19 84.0
MS.gene81213.t1 AT3G01080 33.117 154 82 4 84 216 206 359 2.31e-18 83.6
MS.gene81213.t1 AT3G01080 33.117 154 82 4 84 216 168 321 2.83e-18 83.2
MS.gene81213.t1 AT2G04880 38.614 101 62 0 47 147 75 175 1.51e-17 81.3
MS.gene81213.t1 AT2G38470 28.718 195 77 5 83 216 184 377 2.06e-15 75.1
MS.gene81213.t1 AT4G26640 40.260 77 45 1 67 142 154 230 1.62e-13 69.7
MS.gene81213.t1 AT4G26640 40.260 77 45 1 67 142 194 270 1.85e-13 69.3
MS.gene81213.t1 AT4G26640 40.260 77 45 1 67 142 122 198 2.25e-13 69.3
MS.gene81213.t1 AT4G26640 40.260 77 45 1 67 142 18 94 3.52e-13 68.2
MS.gene81213.t1 AT4G26640 40.260 77 45 1 67 142 18 94 3.52e-13 68.2
MS.gene81213.t1 AT4G26640 40.260 77 45 1 67 142 18 94 3.52e-13 68.2
MS.gene81213.t1 AT4G26640 40.260 77 45 1 67 142 18 94 3.52e-13 68.2
MS.gene81213.t1 AT3G01080 47.458 59 31 0 84 142 206 264 1.46e-12 66.2
MS.gene81213.t1 AT1G13960 45.902 61 33 0 84 144 230 290 8.78e-12 64.3
MS.gene81213.t1 AT2G30250 40.625 64 38 0 84 147 167 230 9.82e-12 64.3
MS.gene81213.t1 AT2G03340 47.458 59 31 0 84 142 251 309 1.25e-11 63.9
MS.gene81213.t1 AT1G13960 45.902 61 33 0 84 144 77 137 1.63e-11 63.5
MS.gene81213.t1 AT4G26440 44.828 58 32 0 84 141 179 236 7.29e-11 62.0

Find 46 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACAATGTGACCTCCCTTTC+AGG 0.167329 5.2:+81837963 None:intergenic
AATTCATGTGAAGGAGTATT+AGG 0.224685 5.2:+81837861 None:intergenic
AACTTCCACACCGGCCAAAT+AGG 0.232568 5.2:+81837542 None:intergenic
GGGACCACATCAACCCTATT+TGG 0.297637 5.2:-81837556 MS.gene81213:CDS
TATTGATTAGATTGTATTAG+AGG 0.301348 5.2:+81837837 None:intergenic
TGAATGTATGCATCTGTAAT+AGG 0.347318 5.2:+81837719 None:intergenic
TGTTCTTCCTGTTGTTGAAC+AGG 0.360275 5.2:-81837577 MS.gene81213:CDS
ACAATGCTTGATTGAGGATT+AGG 0.367320 5.2:+81837615 None:intergenic
ACTTCCACACCGGCCAAATA+GGG 0.411577 5.2:+81837543 None:intergenic
TCGCTCAATCATACGTGAAA+TGG 0.424095 5.2:-81837811 MS.gene81213:CDS
TACTTTCGATGCGCCTATCC+AGG 0.436737 5.2:-81837126 MS.gene81213:CDS
ATTCATGTGAAGGAGTATTA+GGG 0.450455 5.2:+81837862 None:intergenic
AAATTCCATTGGTCAAATGA+TGG 0.451151 5.2:-81837678 MS.gene81213:CDS
TTGTAAATGATGCGTATCGC+TGG 0.453288 5.2:-81837351 MS.gene81213:CDS
CGTGAAATGGTAAGAAAAGA+TGG 0.461858 5.2:-81837798 MS.gene81213:CDS
GCGTATCGCTGGCGCAAATA+CGG 0.465731 5.2:-81837340 MS.gene81213:CDS
ATTAGGATGATTATGCTGAT+TGG 0.483420 5.2:+81837632 None:intergenic
TTGGCCGGTGTGGAAGTTCA+AGG 0.489911 5.2:-81837537 MS.gene81213:intron
TGTGGTCCCTGTTCAACAAC+AGG 0.490907 5.2:+81837570 None:intergenic
TTTCACTGTGCATCCTGGAT+AGG 0.494274 5.2:+81837113 None:intergenic
ACAGGAAGAACATGATCAAC+CGG 0.497996 5.2:+81837588 None:intergenic
GTTCTTCCTGTTGTTGAACA+GGG 0.504635 5.2:-81837576 MS.gene81213:CDS
ATGCATACATTCAGACTATC+GGG 0.520420 5.2:-81837709 MS.gene81213:CDS
GATGCATACATTCAGACTAT+CGG 0.525801 5.2:-81837710 MS.gene81213:CDS
AATTCCATTGGTCAAATGAT+GGG 0.526059 5.2:-81837677 MS.gene81213:CDS
CCACATCAACCCTATTTGGC+CGG 0.528483 5.2:-81837552 MS.gene81213:CDS
AGAGACTAATGATGTAGCTA+TGG 0.536005 5.2:-81837937 MS.gene81213:CDS
TAAGAAAAGATGGCTATAAG+TGG 0.538492 5.2:-81837788 MS.gene81213:CDS
AATACTGATGCTACTAGAGT+TGG 0.539414 5.2:-81837427 MS.gene81213:CDS
CGGTCCCATCATTTGACCAA+TGG 0.543680 5.2:+81837673 None:intergenic
ACATCGAGTGAATCCTGAAA+GGG 0.553354 5.2:-81837976 MS.gene81213:CDS
ATTAGAGGTAATTCATGTGA+AGG 0.561308 5.2:+81837852 None:intergenic
GGTGGTACAATGCTTGATTG+AGG 0.561784 5.2:+81837609 None:intergenic
ACTCGATGTTGTACTTCAGA+AGG 0.565037 5.2:+81837990 None:intergenic
GAAGTTTGAACAACAAGGTG+AGG 0.569592 5.2:+81837388 None:intergenic
TGTAGCTATGGCTTGTGACT+TGG 0.571450 5.2:-81837925 MS.gene81213:CDS
TCAATCAAGCATTGTACCAC+CGG 0.571503 5.2:-81837607 MS.gene81213:CDS
CTCTGCGAGTGTTGCATGAG+TGG 0.578417 5.2:+81837885 None:intergenic
CAGTTGAAGTTTGAACAACA+AGG 0.606492 5.2:+81837383 None:intergenic
AACATCGAGTGAATCCTGAA+AGG 0.613815 5.2:-81837977 MS.gene81213:CDS
TCAACCCTATTTGGCCGGTG+TGG 0.617265 5.2:-81837547 MS.gene81213:CDS
CCGGCCAAATAGGGTTGATG+TGG 0.620302 5.2:+81837552 None:intergenic
GGTGTAACTAAAATATTCGA+CGG 0.634019 5.2:+81837653 None:intergenic
TCGAGTGAATCCTGAAAGGG+AGG 0.657624 5.2:-81837973 MS.gene81213:CDS
ATCACCTTGAACTTCCACAC+CGG 0.664656 5.2:+81837533 None:intergenic
GGAAGAACATGATCAACCGG+TGG 0.725841 5.2:+81837591 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACAATGTACAATATATTAAG+AGG + chr5.2:81837681-81837700 None:intergenic 20.0%
!!! TATTGATTAGATTGTATTAG+AGG + chr5.2:81837310-81837329 None:intergenic 20.0%
! GTTAATGGAAAAACAATCAA+AGG - chr5.2:81837837-81837856 MS.gene81213:CDS 25.0%
!! GAAAGTAATTTCTAGAAGAT+TGG + chr5.2:81838005-81838024 None:intergenic 25.0%
AAATTCCATTGGTCAAATGA+TGG - chr5.2:81837466-81837485 MS.gene81213:intron 30.0%
AATTCCATTGGTCAAATGAT+GGG - chr5.2:81837467-81837486 MS.gene81213:intron 30.0%
ATGAGTTCAAAACAAAAGCT+AGG + chr5.2:81837868-81837887 None:intergenic 30.0%
ATTAGAGGTAATTCATGTGA+AGG + chr5.2:81837295-81837314 None:intergenic 30.0%
ATTAGGATGATTATGCTGAT+TGG + chr5.2:81837515-81837534 None:intergenic 30.0%
GGCTATAAGTGGAAAAAATA+TGG - chr5.2:81837367-81837386 MS.gene81213:CDS 30.0%
GGTGTAACTAAAATATTCGA+CGG + chr5.2:81837494-81837513 None:intergenic 30.0%
TAAGAAAAGATGGCTATAAG+TGG - chr5.2:81837356-81837375 MS.gene81213:CDS 30.0%
TACGGAAGAAAAATGGTTAA+TGG - chr5.2:81837822-81837841 MS.gene81213:CDS 30.0%
TGAATGTATGCATCTGTAAT+AGG + chr5.2:81837428-81837447 None:intergenic 30.0%
!! AATTCATGTGAAGGAGTATT+AGG + chr5.2:81837286-81837305 None:intergenic 30.0%
!! ATTCATGTGAAGGAGTATTA+GGG + chr5.2:81837285-81837304 None:intergenic 30.0%
AATACTGATGCTACTAGAGT+TGG - chr5.2:81837717-81837736 MS.gene81213:CDS 35.0%
ACAATGCTTGATTGAGGATT+AGG + chr5.2:81837532-81837551 None:intergenic 35.0%
AGAGACTAATGATGTAGCTA+TGG - chr5.2:81837207-81837226 MS.gene81213:intron 35.0%
ATGCATACATTCAGACTATC+GGG - chr5.2:81837435-81837454 MS.gene81213:CDS 35.0%
CAGTTGAAGTTTGAACAACA+AGG + chr5.2:81837764-81837783 None:intergenic 35.0%
CGTGAAATGGTAAGAAAAGA+TGG - chr5.2:81837346-81837365 MS.gene81213:CDS 35.0%
GATGCATACATTCAGACTAT+CGG - chr5.2:81837434-81837453 MS.gene81213:CDS 35.0%
GGGCAAAAAAGAAATTCCAT+TGG - chr5.2:81837455-81837474 MS.gene81213:intron 35.0%
AACATCGAGTGAATCCTGAA+AGG - chr5.2:81837167-81837186 MS.gene81213:intron 40.0%
ACAGGAAGAACATGATCAAC+CGG + chr5.2:81837559-81837578 None:intergenic 40.0%
ACATCGAGTGAATCCTGAAA+GGG - chr5.2:81837168-81837187 MS.gene81213:intron 40.0%
ACTCGATGTTGTACTTCAGA+AGG + chr5.2:81837157-81837176 None:intergenic 40.0%
GAAGTTTGAACAACAAGGTG+AGG + chr5.2:81837759-81837778 None:intergenic 40.0%
GCGCAAATACGGAAGAAAAA+TGG - chr5.2:81837815-81837834 MS.gene81213:CDS 40.0%
GTTCTTCCTGTTGTTGAACA+GGG - chr5.2:81837568-81837587 MS.gene81213:CDS 40.0%
TCGCTCAATCATACGTGAAA+TGG - chr5.2:81837333-81837352 MS.gene81213:CDS 40.0%
TGTTCTTCCTGTTGTTGAAC+AGG - chr5.2:81837567-81837586 MS.gene81213:CDS 40.0%
TTGTAAATGATGCGTATCGC+TGG - chr5.2:81837793-81837812 MS.gene81213:CDS 40.0%
! TCAATCAAGCATTGTACCAC+CGG - chr5.2:81837537-81837556 MS.gene81213:intron 40.0%
ATCACCTTGAACTTCCACAC+CGG + chr5.2:81837614-81837633 None:intergenic 45.0%
GGTGGTACAATGCTTGATTG+AGG + chr5.2:81837538-81837557 None:intergenic 45.0%
! TGTAGCTATGGCTTGTGACT+TGG - chr5.2:81837219-81837238 MS.gene81213:intron 45.0%
AACTTCCACACCGGCCAAAT+AGG + chr5.2:81837605-81837624 None:intergenic 50.0%
ACTTCCACACCGGCCAAATA+GGG + chr5.2:81837604-81837623 None:intergenic 50.0%
CCACATCAACCCTATTTGGC+CGG - chr5.2:81837592-81837611 MS.gene81213:CDS 50.0%
CGGTCCCATCATTTGACCAA+TGG + chr5.2:81837474-81837493 None:intergenic 50.0%
GACAATGTGACCTCCCTTTC+AGG + chr5.2:81837184-81837203 None:intergenic 50.0%
GGAAGAACATGATCAACCGG+TGG + chr5.2:81837556-81837575 None:intergenic 50.0%
GGGACCACATCAACCCTATT+TGG - chr5.2:81837588-81837607 MS.gene81213:CDS 50.0%
TACTTTCGATGCGCCTATCC+AGG - chr5.2:81838018-81838037 MS.gene81213:CDS 50.0%
TCGAGTGAATCCTGAAAGGG+AGG - chr5.2:81837171-81837190 MS.gene81213:intron 50.0%
TGTGGTCCCTGTTCAACAAC+AGG + chr5.2:81837577-81837596 None:intergenic 50.0%
GCGTATCGCTGGCGCAAATA+CGG - chr5.2:81837804-81837823 MS.gene81213:CDS 55.0%
TCAACCCTATTTGGCCGGTG+TGG - chr5.2:81837597-81837616 MS.gene81213:CDS 55.0%
TTGGCCGGTGTGGAAGTTCA+AGG - chr5.2:81837607-81837626 MS.gene81213:CDS 55.0%
! CTCTGCGAGTGTTGCATGAG+TGG + chr5.2:81837262-81837281 None:intergenic 55.0%
!! CCGGCCAAATAGGGTTGATG+TGG + chr5.2:81837595-81837614 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 81837115 81838051 81837115 ID=MS.gene81213
chr5.2 mRNA 81837115 81838051 81837115 ID=MS.gene81213.t1;Parent=MS.gene81213
chr5.2 exon 81837538 81838051 81837538 ID=MS.gene81213.t1.exon1;Parent=MS.gene81213.t1
chr5.2 CDS 81837538 81838051 81837538 ID=cds.MS.gene81213.t1;Parent=MS.gene81213.t1
chr5.2 exon 81837308 81837454 81837308 ID=MS.gene81213.t1.exon2;Parent=MS.gene81213.t1
chr5.2 CDS 81837308 81837454 81837308 ID=cds.MS.gene81213.t1;Parent=MS.gene81213.t1
chr5.2 exon 81837115 81837152 81837115 ID=MS.gene81213.t1.exon3;Parent=MS.gene81213.t1
chr5.2 CDS 81837115 81837152 81837115 ID=cds.MS.gene81213.t1;Parent=MS.gene81213.t1
Gene Sequence

>MS.gene81213

ATGGTTTTGTCACAACAAAATGTTGATCACAATGATTCTCCTTCTGAAGTACAACATCGAGTGAATCCTGAAAGGGAGGTCACATTGTCACAAGAGACTAATGATGTAGCTATGGCTTGTGACTTGGTATTATCGCATTCTTCACCACTCATGCAACACTCGCAGAGCCCTAATACTCCTTCACATGAATTACCTCTAATACAATCTAATCAATATACTCGCTCAATCATACGTGAAATGGTAAGAAAAGATGGCTATAAGTGGAAAAAATATGGTGAGAAAAACATTAAGAAGAATGAACATAAAAGAGCCTATTACAGATGCATACATTCAGACTATCGGGCAAAAAAGAAATTCCATTGGTCAAATGATGGGACCGTCGAATATTTTAGTTACACCAATCAGCATAATCATCCTAATCCTCAATCAAGCATTGTACCACCGGTTGATCATGTTCTTCCTGTTGTTGAACAGGGACCACATCAACCCTATTTGGCCGGTGTGGAAGTTCAAGGTGATAAGTACTCTTTTTTAGTATTTTAGTTTCAATATTACATGAAAAACCTCTTAATATATTGTACATTGTTGTGCATGCAGACAACAATACTGATGCTACTAGAGTTGGCGTGTTAACTAGTGAACCTCACCTTGTTGTTCAAACTTCAACTGCAAATGAAGTTGTAAATGATGCGTATCGCTGGCGCAAATACGGAAGAAAAATGGTTAATGGAAAAACAATCAAAGGTACATCCTAGCTTTTGTTTTGAACTCATACATTGTAGATCATTTCAATATGCATTTTTTTTATTGCTTTTTCTCTGTGCTTTAAGCTTTTGCAAATACACAAATTCAAGAAATGATTTTATCTAATTGATTGCATTTTCTCTCCAATCTTCTAGAAATTACTTTCGATGCGCCTATCCAGGATGCACAGTGA
Protein sequence

>MS.gene81213.t1

MVLSQQNVDHNDSPSEVQHRVNPEREVTLSQETNDVAMACDLVLSHSSPLMQHSQSPNTPSHELPLIQSNQYTRSIIREMVRKDGYKWKKYGEKNIKKNEHKRAYYRCIHSDYRAKKKFHWSNDGTVEYFSYTNQHNHPNPQSSIVPPVDHVLPVVEQGPHQPYLAGVEVQDNNTDATRVGVLTSEPHLVVQTSTANEVVNDAYRWRKYGRKMVNGKTIKEITFDAPIQDAQ