AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene062895

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene062895.t1 MTR_4g071150 98.026 152 1 1 1 150 1 152 9.78e-101 285
MS.gene062895.t1 MTR_2g096610 87.333 150 17 1 1 150 1 148 4.41e-83 241
MS.gene062895.t1 MTR_4g064005 94.000 150 7 1 1 150 1 148 1.32e-82 239
MS.gene062895.t1 MTR_4g063410 94.000 150 7 1 1 150 1 148 2.70e-82 239
MS.gene062895.t1 MTR_2g096570 91.558 154 8 2 1 150 1 153 5.64e-82 238
MS.gene062895.t1 MTR_4g063280 92.424 132 9 1 20 150 14 145 2.84e-81 236
MS.gene062895.t1 MTR_4g064967 93.333 150 8 1 1 150 1 148 2.98e-80 234
MS.gene062895.t1 MTR_8g086640 96.212 132 5 0 1 132 1 132 4.27e-75 221
MS.gene062895.t1 MTR_7g113160 79.699 133 26 1 10 142 13 144 5.01e-71 210
MS.gene062895.t1 MTR_7g108320 75.000 128 26 3 4 130 6 128 7.58e-60 182
MS.gene062895.t1 MTR_7g114060 74.219 128 29 1 3 130 2 125 7.85e-60 182
MS.gene062895.t1 MTR_7g114040 74.219 128 29 1 3 130 2 125 7.85e-60 182
MS.gene062895.t1 MTR_7g093910 73.228 127 31 1 4 130 5 128 9.33e-60 181
MS.gene062895.t1 MTR_2g082510 70.543 129 38 0 11 139 3 131 3.21e-59 180
MS.gene062895.t1 MTR_2g082220 73.950 119 31 0 11 129 3 121 1.65e-57 176
MS.gene062895.t1 MTR_6g005150 62.992 127 33 3 24 149 26 139 3.16e-47 150
MS.gene062895.t1 MTR_4g063300 75.238 105 21 1 45 149 10 109 3.34e-46 146
MS.gene062895.t1 MTR_7g114050 68.644 118 22 3 17 130 10 116 2.19e-45 145
MS.gene062895.t1 MTR_1g011750 60.714 112 42 2 21 131 23 133 3.59e-36 121
MS.gene062895.t1 MTR_1g011850 60.714 112 42 2 21 131 23 133 3.59e-36 121
MS.gene062895.t1 MTR_1g114050 60.550 109 41 2 21 128 20 127 2.90e-35 119
MS.gene062895.t1 MTR_1g071040 62.500 104 37 2 26 128 28 130 1.54e-34 117
MS.gene062895.t1 MTR_1g069770 48.958 96 48 1 45 139 9 104 5.64e-25 92.4
MS.gene062895.t1 MTR_4g048490 44.762 105 29 2 24 128 26 101 1.70e-16 70.9
MS.gene062895.t1 MTR_7g010440 70.588 51 15 0 78 128 122 172 2.24e-16 74.3
MS.gene062895.t1 MTR_4g005910 74.419 43 11 0 87 129 4 46 3.21e-16 68.6
MS.gene062895.t1 MTR_7g027610 41.525 118 42 4 20 135 10 102 5.62e-15 67.0
MS.gene062895.t1 MTR_0653s0030 54.545 55 25 0 55 109 43 97 4.58e-12 60.5
MS.gene062895.t1 MTR_2g096590 70.000 40 12 0 110 149 12 51 5.34e-12 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene062895.t1 AT5G02560 79.739 153 28 1 1 150 1 153 1.48e-77 227
MS.gene062895.t1 AT5G27670 76.316 152 32 3 1 150 1 150 3.32e-74 218
MS.gene062895.t1 AT5G02560 68.927 177 28 2 1 150 1 177 1.06e-72 216
MS.gene062895.t1 AT5G59870 75.000 148 36 1 4 150 3 150 8.98e-72 212
MS.gene062895.t1 AT1G51060 76.667 120 28 0 11 130 3 122 9.15e-61 184
MS.gene062895.t1 AT4G27230 71.538 130 32 1 11 140 3 127 1.43e-59 181
MS.gene062895.t1 AT4G27230 71.538 130 32 1 11 140 3 127 1.43e-59 181
MS.gene062895.t1 AT3G20670 75.630 119 29 0 11 129 3 121 4.77e-59 179
MS.gene062895.t1 AT1G08880 71.654 127 33 1 7 130 2 128 3.47e-58 177
MS.gene062895.t1 AT5G54640 74.790 119 30 0 11 129 3 121 4.51e-58 177
MS.gene062895.t1 AT1G54690 72.868 129 29 3 3 130 5 128 1.19e-57 176
MS.gene062895.t1 AT2G38810 60.714 112 42 2 21 131 25 135 6.97e-37 123
MS.gene062895.t1 AT2G38810 60.714 112 42 2 21 131 25 135 6.97e-37 123
MS.gene062895.t1 AT2G38810 60.714 112 42 2 21 131 25 135 6.97e-37 123
MS.gene062895.t1 AT2G38810 60.714 112 42 2 21 131 25 135 6.97e-37 123
MS.gene062895.t1 AT1G52740 62.857 105 37 2 25 128 27 130 6.18e-35 118
MS.gene062895.t1 AT3G54560 60.185 108 41 2 25 131 29 135 1.25e-34 118
MS.gene062895.t1 AT3G54560 60.185 108 41 2 25 131 29 135 1.25e-34 118
MS.gene062895.t1 AT4G13570 48.913 92 45 2 32 122 28 118 1.97e-20 81.3
MS.gene062895.t1 AT4G13570 48.352 91 45 2 33 122 35 124 5.65e-20 80.1

Find 56 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGACTTTCCAGCCTTCTT+TGG 0.241789 4.2:+36205972 None:intergenic
AATCAGATCTAAGCCTTCTT+TGG 0.242120 4.2:+36205951 None:intergenic
GTCTTCTTAGGCAACAGAAT+TGG 0.279189 4.2:+36206023 None:intergenic
TTAGCCCTTTCAGTCTTCTT+AGG 0.279305 4.2:+36206011 None:intergenic
CGATTCTTCCGACTGGGAAT+TGG 0.285182 4.2:+36206291 None:intergenic
CTTGTCACCGACTTCTTCCT+TGG 0.303917 4.2:+36206332 None:intergenic
GGCTCCCTTCTTTGTTGTCT+TGG 0.304409 4.2:+36206376 None:intergenic
GAGCATAACGACCTTTCTTC+AGG 0.360921 4.2:+36206261 None:intergenic
GAGCTTGGGAAGTTGCTTGC+TGG 0.378028 4.2:-36206086 MS.gene062895:CDS
TCTTCTTAGGCAACAGAATT+GGG 0.399065 4.2:+36206024 None:intergenic
CATTCCAAGGCATTTGTTGT+TGG 0.411010 4.2:-36206126 MS.gene062895:CDS
GAAGGGAGCCGGTGGAAGAA+AGG 0.417242 4.2:-36206363 MS.gene062895:CDS
AAGGGAGCCGGTGGAAGAAA+GGG 0.429527 4.2:-36206362 MS.gene062895:CDS
CAATTCCCAGTCGGAAGAAT+CGG 0.431861 4.2:-36206290 MS.gene062895:CDS
AACAGAATTGGGTTAATGTT+CGG 0.436254 4.2:+36206035 None:intergenic
AGAACTGCGGCTAGGTAAAC+CGG 0.450323 4.2:+36206218 None:intergenic
TATGCTCAGCGTGTCGGCAC+CGG 0.464760 4.2:-36206245 MS.gene062895:CDS
ACCTCCTCCCTTTCTTCCAC+CGG 0.471747 4.2:+36206355 None:intergenic
CGCTGCTGAAGTTCTTGAGT+TGG 0.474639 4.2:-36206186 MS.gene062895:CDS
GCTGAAGTTCTTGAGTTGGC+TGG 0.476603 4.2:-36206182 MS.gene062895:CDS
GCGTGTCGGCACCGGTGCTC+CGG 0.486643 4.2:-36206237 MS.gene062895:CDS
GAATTGGAGACCGGCTCTGA+TGG 0.486869 4.2:+36206307 None:intergenic
AAGCACCAAGACAACAAAGA+AGG 0.501816 4.2:-36206381 MS.gene062895:CDS
AGCAAGGAACCAAAGAAGGC+TGG 0.510603 4.2:-36205981 MS.gene062895:CDS
GGCTGGAAAGTCTCCAAAGA+AGG 0.525629 4.2:-36205964 MS.gene062895:CDS
ACAGCCAACAACAAATGCCT+TGG 0.530810 4.2:+36206122 None:intergenic
GTGAGGAATGATGAAGAGCT+TGG 0.543487 4.2:-36206101 MS.gene062895:CDS
ATCGGTCGATACCTGAAGAA+AGG 0.548682 4.2:-36206272 MS.gene062895:CDS
TATCGACCGATTCTTCCGAC+TGG 0.549955 4.2:+36206284 None:intergenic
TGGTAGCAAGGAACCAAAGA+AGG 0.550474 4.2:-36205985 MS.gene062895:CDS
TGTTGCCTAAGAAGACTGAA+AGG 0.556495 4.2:-36206016 MS.gene062895:CDS
GGCTAGGTAAACCGGAGCAC+CGG 0.557328 4.2:+36206226 None:intergenic
AGCACCAAGACAACAAAGAA+GGG 0.558080 4.2:-36206380 MS.gene062895:CDS
GAAGAAAGGGAGGAGGTCCA+AGG 0.558674 4.2:-36206349 MS.gene062895:CDS
TGAGGAATGATGAAGAGCTT+GGG 0.560327 4.2:-36206100 MS.gene062895:CDS
TCCGACTGGGAATTGGAGAC+CGG 0.563841 4.2:+36206298 None:intergenic
AAGAACACCACCATGAGCTA+TGG 0.573393 4.2:+36206058 None:intergenic
AAGACAACAAAGAAGGGAGC+CGG 0.578427 4.2:-36206374 MS.gene062895:CDS
GCTGGTGTTACCATAGCTCA+TGG 0.586669 4.2:-36206068 MS.gene062895:CDS
GGTCGTTATGCTCAGCGTGT+CGG 0.588968 4.2:-36206251 MS.gene062895:CDS
GTGACAAGATCCATCAGAGC+CGG 0.589197 4.2:-36206317 MS.gene062895:CDS
GTTGCCTAAGAAGACTGAAA+GGG 0.589268 4.2:-36206015 MS.gene062895:CDS
GCCGGTGGAAGAAAGGGAGG+AGG 0.593863 4.2:-36206356 MS.gene062895:CDS
AAGGGCTAACACTGGTAGCA+AGG 0.594830 4.2:-36205997 MS.gene062895:CDS
ACAACAAAGAAGGGAGCCGG+TGG 0.595449 4.2:-36206371 MS.gene062895:CDS
GGAGCCGGTGGAAGAAAGGG+AGG 0.604037 4.2:-36206359 MS.gene062895:CDS
ATCGACCGATTCTTCCGACT+GGG 0.613102 4.2:+36206285 None:intergenic
AGAAGAATAGAATCATTCCA+AGG 0.617592 4.2:-36206139 MS.gene062895:CDS
AGGAGGTCCAAGGAAGAAGT+CGG 0.620460 4.2:-36206339 MS.gene062895:CDS
GGTATTCAAGAACTGCGGCT+AGG 0.625337 4.2:+36206210 None:intergenic
GGCATTTGTTGTTGGCTGTG+AGG 0.627947 4.2:-36206118 MS.gene062895:CDS
GCCGGTCTCCAATTCCCAGT+CGG 0.630576 4.2:-36206299 MS.gene062895:CDS
AAGACTGAAAGGGCTAACAC+TGG 0.665786 4.2:-36206005 MS.gene062895:CDS
AGCGAGGTATTCAAGAACTG+CGG 0.702914 4.2:+36206205 None:intergenic
ACTCAAGAACTTCAGCAGCG+AGG 0.730395 4.2:+36206189 None:intergenic
GGTGTTACCATAGCTCATGG+TGG 0.742529 4.2:-36206065 MS.gene062895:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AACAGAATTGGGTTAATGTT+CGG + chr4.2:36206316-36206335 None:intergenic 30.0%
AGAAGAATAGAATCATTCCA+AGG - chr4.2:36206209-36206228 MS.gene062895:CDS 30.0%
TCTTCTTAGGCAACAGAATT+GGG + chr4.2:36206327-36206346 None:intergenic 35.0%
AAGCACCAAGACAACAAAGA+AGG - chr4.2:36205967-36205986 MS.gene062895:CDS 40.0%
AGCACCAAGACAACAAAGAA+GGG - chr4.2:36205968-36205987 MS.gene062895:CDS 40.0%
GTCTTCTTAGGCAACAGAAT+TGG + chr4.2:36206328-36206347 None:intergenic 40.0%
GTTGCCTAAGAAGACTGAAA+GGG - chr4.2:36206333-36206352 MS.gene062895:CDS 40.0%
TGAGGAATGATGAAGAGCTT+GGG - chr4.2:36206248-36206267 MS.gene062895:CDS 40.0%
TGTTGCCTAAGAAGACTGAA+AGG - chr4.2:36206332-36206351 MS.gene062895:CDS 40.0%
TTAGCCCTTTCAGTCTTCTT+AGG + chr4.2:36206340-36206359 None:intergenic 40.0%
!! CATTCCAAGGCATTTGTTGT+TGG - chr4.2:36206222-36206241 MS.gene062895:CDS 40.0%
AAGAACACCACCATGAGCTA+TGG + chr4.2:36206293-36206312 None:intergenic 45.0%
AAGACAACAAAGAAGGGAGC+CGG - chr4.2:36205974-36205993 MS.gene062895:CDS 45.0%
AAGACTGAAAGGGCTAACAC+TGG - chr4.2:36206343-36206362 MS.gene062895:CDS 45.0%
ACAGCCAACAACAAATGCCT+TGG + chr4.2:36206229-36206248 None:intergenic 45.0%
ATCGGTCGATACCTGAAGAA+AGG - chr4.2:36206076-36206095 MS.gene062895:CDS 45.0%
CAATTCCCAGTCGGAAGAAT+CGG - chr4.2:36206058-36206077 MS.gene062895:CDS 45.0%
GAGCATAACGACCTTTCTTC+AGG + chr4.2:36206090-36206109 None:intergenic 45.0%
GTGAGGAATGATGAAGAGCT+TGG - chr4.2:36206247-36206266 MS.gene062895:CDS 45.0%
TGGTAGCAAGGAACCAAAGA+AGG - chr4.2:36206363-36206382 MS.gene062895:CDS 45.0%
! AGCGAGGTATTCAAGAACTG+CGG + chr4.2:36206146-36206165 None:intergenic 45.0%
AAGGGCTAACACTGGTAGCA+AGG - chr4.2:36206351-36206370 MS.gene062895:CDS 50.0%
ACTCAAGAACTTCAGCAGCG+AGG + chr4.2:36206162-36206181 None:intergenic 50.0%
AGAACTGCGGCTAGGTAAAC+CGG + chr4.2:36206133-36206152 None:intergenic 50.0%
AGCAAGGAACCAAAGAAGGC+TGG - chr4.2:36206367-36206386 MS.gene062895:CDS 50.0%
AGGAGGTCCAAGGAAGAAGT+CGG - chr4.2:36206009-36206028 MS.gene062895:CDS 50.0%
CGATTCTTCCGACTGGGAAT+TGG + chr4.2:36206060-36206079 None:intergenic 50.0%
CGCTGCTGAAGTTCTTGAGT+TGG - chr4.2:36206162-36206181 MS.gene062895:CDS 50.0%
GGAGACTTTCCAGCCTTCTT+TGG + chr4.2:36206379-36206398 None:intergenic 50.0%
GGCTGGAAAGTCTCCAAAGA+AGG - chr4.2:36206384-36206403 MS.gene062895:CDS 50.0%
GGTATTCAAGAACTGCGGCT+AGG + chr4.2:36206141-36206160 None:intergenic 50.0%
GTGACAAGATCCATCAGAGC+CGG - chr4.2:36206031-36206050 MS.gene062895:CDS 50.0%
! ATCGACCGATTCTTCCGACT+GGG + chr4.2:36206066-36206085 None:intergenic 50.0%
! GGCTCCCTTCTTTGTTGTCT+TGG + chr4.2:36205975-36205994 None:intergenic 50.0%
! GGTGTTACCATAGCTCATGG+TGG - chr4.2:36206283-36206302 MS.gene062895:CDS 50.0%
! TATCGACCGATTCTTCCGAC+TGG + chr4.2:36206067-36206086 None:intergenic 50.0%
!! CTTGTCACCGACTTCTTCCT+TGG + chr4.2:36206019-36206038 None:intergenic 50.0%
!! GCTGAAGTTCTTGAGTTGGC+TGG - chr4.2:36206166-36206185 MS.gene062895:CDS 50.0%
!! GCTGGTGTTACCATAGCTCA+TGG - chr4.2:36206280-36206299 MS.gene062895:CDS 50.0%
!! GGCATTTGTTGTTGGCTGTG+AGG - chr4.2:36206230-36206249 MS.gene062895:CDS 50.0%
AAGGGAGCCGGTGGAAGAAA+GGG - chr4.2:36205986-36206005 MS.gene062895:CDS 55.0%
ACAACAAAGAAGGGAGCCGG+TGG - chr4.2:36205977-36205996 MS.gene062895:CDS 55.0%
ACCTCCTCCCTTTCTTCCAC+CGG + chr4.2:36205996-36206015 None:intergenic 55.0%
GAAGAAAGGGAGGAGGTCCA+AGG - chr4.2:36205999-36206018 MS.gene062895:CDS 55.0%
GAGCTTGGGAAGTTGCTTGC+TGG - chr4.2:36206262-36206281 MS.gene062895:CDS 55.0%
GGTCGTTATGCTCAGCGTGT+CGG - chr4.2:36206097-36206116 MS.gene062895:CDS 55.0%
TCCGACTGGGAATTGGAGAC+CGG + chr4.2:36206053-36206072 None:intergenic 55.0%
! GAATTGGAGACCGGCTCTGA+TGG + chr4.2:36206044-36206063 None:intergenic 55.0%
GAAGGGAGCCGGTGGAAGAA+AGG - chr4.2:36205985-36206004 MS.gene062895:CDS 60.0%
GCCGGTCTCCAATTCCCAGT+CGG - chr4.2:36206049-36206068 MS.gene062895:CDS 60.0%
GGCTAGGTAAACCGGAGCAC+CGG + chr4.2:36206125-36206144 None:intergenic 60.0%
! TATGCTCAGCGTGTCGGCAC+CGG - chr4.2:36206103-36206122 MS.gene062895:CDS 60.0%
GCCGGTGGAAGAAAGGGAGG+AGG - chr4.2:36205992-36206011 MS.gene062895:CDS 65.0%
GGAGCCGGTGGAAGAAAGGG+AGG - chr4.2:36205989-36206008 MS.gene062895:CDS 65.0%
!! GCGTGTCGGCACCGGTGCTC+CGG - chr4.2:36206111-36206130 MS.gene062895:CDS 75.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 36205959 36206411 36205959 ID=MS.gene062895
chr4.2 mRNA 36205959 36206411 36205959 ID=MS.gene062895.t1;Parent=MS.gene062895
chr4.2 exon 36205959 36206411 36205959 ID=MS.gene062895.t1.exon1;Parent=MS.gene062895.t1
chr4.2 CDS 36205959 36206411 36205959 ID=cds.MS.gene062895.t1;Parent=MS.gene062895.t1
Gene Sequence

>MS.gene062895

ATGGACGCAAGCACCAAGACAACAAAGAAGGGAGCCGGTGGAAGAAAGGGAGGAGGTCCAAGGAAGAAGTCGGTGACAAGATCCATCAGAGCCGGTCTCCAATTCCCAGTCGGAAGAATCGGTCGATACCTGAAGAAAGGTCGTTATGCTCAGCGTGTCGGCACCGGTGCTCCGGTTTACCTAGCCGCAGTTCTTGAATACCTCGCTGCTGAAGTTCTTGAGTTGGCTGGAAACGCTGCTCGTGATAACAAGAAGAATAGAATCATTCCAAGGCATTTGTTGTTGGCTGTGAGGAATGATGAAGAGCTTGGGAAGTTGCTTGCTGGTGTTACCATAGCTCATGGTGGTGTTCTTCCGAACATTAACCCAATTCTGTTGCCTAAGAAGACTGAAAGGGCTAACACTGGTAGCAAGGAACCAAAGAAGGCTGGAAAGTCTCCAAAGAAGGCTTAG
Protein sequence

>MS.gene062895.t1

MDASTKTTKKGAGGRKGGGPRKKSVTRSIRAGLQFPVGRIGRYLKKGRYAQRVGTGAPVYLAAVLEYLAAEVLELAGNAARDNKKNRIIPRHLLLAVRNDEELGKLLAGVTIAHGGVLPNINPILLPKKTERANTGSKEPKKAGKSPKKA