AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene005775

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene005775.t1 MTR_1g090783 95.513 156 7 0 1 156 1 156 4.29e-107 302
MS.gene005775.t1 MTR_5g047580 66.013 153 52 0 2 154 3 155 7.70e-70 208
MS.gene005775.t1 MTR_1g090697 61.039 154 60 0 2 155 3 156 1.12e-61 187
MS.gene005775.t1 MTR_1g090710 60.645 155 60 1 2 155 3 157 1.31e-61 187
MS.gene005775.t1 MTR_1g077390 57.143 154 66 0 1 154 2 155 4.87e-59 181
MS.gene005775.t1 MTR_1g084950 63.399 153 56 0 2 154 3 155 2.43e-58 179
MS.gene005775.t1 MTR_1g077320 56.863 153 66 0 2 154 3 155 4.74e-52 163
MS.gene005775.t1 MTR_7g011950 56.209 153 67 0 2 154 3 155 1.46e-51 162
MS.gene005775.t1 MTR_4g028720 56.863 153 66 0 2 154 3 155 6.31e-51 160
MS.gene005775.t1 MTR_1g077300 57.792 154 63 1 1 154 2 153 2.13e-49 156
MS.gene005775.t1 MTR_5g047560 54.248 153 54 1 2 154 3 139 1.57e-48 153
MS.gene005775.t1 MTR_3g466830 43.949 157 87 1 1 156 1 157 1.36e-39 131
MS.gene005775.t1 MTR_3g466890 42.038 157 90 1 1 156 1 157 2.63e-37 125
MS.gene005775.t1 MTR_4g032620 39.456 147 87 2 2 146 3 149 2.53e-34 120
MS.gene005775.t1 MTR_3g466980 37.500 152 94 1 2 152 3 154 1.45e-33 118
MS.gene005775.t1 MTR_8g036130 37.975 158 94 2 2 155 3 160 1.61e-33 118
MS.gene005775.t1 MTR_4g063790 41.935 155 82 4 2 151 3 154 1.18e-30 109
MS.gene005775.t1 MTR_3g065100 42.466 146 83 1 2 146 3 148 1.70e-30 110
MS.gene005775.t1 MTR_4g031910 40.260 154 90 2 2 153 3 156 2.21e-29 107
MS.gene005775.t1 MTR_2g016210 38.065 155 94 2 3 155 4 158 8.67e-28 103
MS.gene005775.t1 MTR_5g075380 33.117 154 102 1 3 155 4 157 1.03e-27 101
MS.gene005775.t1 MTR_2g035610 40.336 119 70 1 2 119 3 121 1.07e-26 97.4
MS.gene005775.t1 MTR_3g466900 38.583 127 77 1 31 156 2 128 3.05e-26 96.7
MS.gene005775.t1 MTR_3g031240 37.342 158 93 4 2 155 3 158 3.06e-26 98.2
MS.gene005775.t1 MTR_3g031100 37.342 158 95 3 2 156 3 159 1.32e-25 98.2
MS.gene005775.t1 MTR_4g028800 57.143 70 28 1 3 72 4 71 2.91e-24 89.7
MS.gene005775.t1 MTR_4g032260 40.541 148 86 2 1 146 2 149 5.35e-24 91.7
MS.gene005775.t1 MTR_3g467080 32.258 155 103 2 2 154 3 157 6.11e-24 91.7
MS.gene005775.t1 MTR_3g466930 36.220 127 80 1 31 156 2 128 1.15e-23 90.1
MS.gene005775.t1 MTR_2g035580 35.294 153 98 1 5 156 6 158 1.04e-22 88.6
MS.gene005775.t1 MTR_4g032290 39.610 154 91 2 2 153 3 156 2.64e-22 89.4
MS.gene005775.t1 MTR_3g465410 34.711 121 77 2 28 146 1 121 8.62e-18 75.5
MS.gene005775.t1 MTR_1g033930 42.056 107 55 3 55 154 8 114 5.48e-15 67.4
MS.gene005775.t1 MTR_4g019670 25.517 145 107 1 2 145 6 150 1.42e-14 70.1
MS.gene005775.t1 MTR_1g033370 40.206 97 57 1 56 151 21 117 1.80e-14 66.2
MS.gene005775.t1 MTR_3g093900 24.516 155 116 1 2 155 6 160 1.36e-13 67.4
MS.gene005775.t1 MTR_7g055800 32.955 88 45 1 30 117 18 91 1.59e-13 62.8
MS.gene005775.t1 MTR_7g106510 24.476 143 101 1 2 144 6 141 1.90e-13 67.0
MS.gene005775.t1 MTR_1g033790 42.308 104 53 3 55 151 8 111 4.28e-13 62.4
MS.gene005775.t1 MTR_6g018920 28.188 149 94 5 2 144 3 144 3.54e-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.gene005775.t1 AT1G65330 46.207 145 77 1 1 144 1 145 5.27e-39 133
MS.gene005775.t1 AT1G65300 44.828 145 79 1 1 144 1 145 1.06e-38 132
MS.gene005775.t1 AT3G05860 40.411 146 86 1 2 146 3 148 2.80e-32 114
MS.gene005775.t1 AT3G05860 40.411 146 86 1 2 146 3 148 6.44e-32 114
MS.gene005775.t1 AT3G05860 40.411 146 86 1 2 146 3 148 9.69e-32 114
MS.gene005775.t1 AT5G26650 40.132 152 90 1 4 154 3 154 2.15e-31 115
MS.gene005775.t1 AT5G26630 41.722 151 87 1 2 151 3 153 4.07e-31 111
MS.gene005775.t1 AT5G48670 41.722 151 87 1 2 151 3 153 1.53e-30 112
MS.gene005775.t1 AT5G27960 38.816 152 92 1 4 154 3 154 3.06e-29 109
MS.gene005775.t1 AT1G31630 32.895 152 100 2 1 151 1 151 2.49e-27 104
MS.gene005775.t1 AT1G31640 34.014 147 95 2 1 146 1 146 8.22e-24 96.3
MS.gene005775.t1 AT1G22590 32.903 155 102 1 2 156 3 155 2.16e-21 85.1
MS.gene005775.t1 AT5G27810 36.559 93 58 1 28 119 1 93 1.29e-19 79.3
MS.gene005775.t1 AT5G26580 33.784 148 85 1 4 151 5 139 2.47e-19 83.2
MS.gene005775.t1 AT2G28700 30.822 146 98 3 2 145 3 147 5.38e-19 82.0
MS.gene005775.t1 AT5G06500 31.293 147 93 4 2 144 3 145 3.98e-14 67.8

Find 25 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCCTCTTGGTTCAAATTCT+TGG 0.209087 1.3:-63641777 None:intergenic
ACCTCTACTTGAGAATTAAA+AGG 0.282594 1.3:-63641686 None:intergenic
ACCCTTCTTTCGTTTGTTGT+AGG 0.315510 1.3:-63641597 None:intergenic
TGCCGCACCATTGGAGATAA+AGG 0.336190 1.3:-63641564 None:intergenic
TGCTGAAGAACTGAAAGATT+TGG 0.355282 1.3:+63641928 MS.gene005775:CDS
TGCCTTCCTTGCCGCACCAT+TGG 0.403210 1.3:-63641573 None:intergenic
TTAATTCTCAAGTAGAGGTC+TGG 0.432525 1.3:+63641690 MS.gene005775:CDS
TATTGAGAAGAAGCTGAAAG+AGG 0.440765 1.3:+63641958 MS.gene005775:CDS
AACGAACTCACAACTCTTTG+CGG 0.445069 1.3:+63641635 MS.gene005775:CDS
AACCTACAACAAACGAAAGA+AGG 0.478774 1.3:+63641595 MS.gene005775:CDS
TTTGCATGATTAAACCCTCT+TGG 0.480889 1.3:-63641790 None:intergenic
TAGAGACAGGCTAAGAAAGT+TGG 0.483109 1.3:+63641826 MS.gene005775:CDS
CTCCAATGGTGCGGCAAGGA+AGG 0.499386 1.3:+63641571 MS.gene005775:CDS
AAACTTGCCTTTATCTCCAA+TGG 0.509814 1.3:+63641557 MS.gene005775:CDS
ACCAAGAATTTGAACCAAGA+GGG 0.512184 1.3:+63641776 MS.gene005775:CDS
CGACGTAGCCATGAGACAAA+AGG 0.530990 1.3:+63641532 None:intergenic
AAAGAAGGGTATCATAAAGA+AGG 0.534887 1.3:+63641610 MS.gene005775:CDS
ATATTGCTAAAGCTAGAGAC+AGG 0.571329 1.3:+63641813 MS.gene005775:CDS
AGAGGTCTGGCCAGATCGAG+AGG 0.578371 1.3:+63641703 MS.gene005775:CDS
TGCCTTTATCTCCAATGGTG+CGG 0.586809 1.3:+63641562 MS.gene005775:CDS
TTATCTCCAATGGTGCGGCA+AGG 0.627345 1.3:+63641567 MS.gene005775:CDS
CTTTCAGTTCTTCAGCAGTG+AGG 0.630045 1.3:-63641922 None:intergenic
AACCAAGAATTTGAACCAAG+AGG 0.635779 1.3:+63641775 MS.gene005775:CDS
ACCTACAACAAACGAAAGAA+GGG 0.643388 1.3:+63641596 MS.gene005775:CDS
GAGGTCTGGCCAGATCGAGA+GGG 0.647218 1.3:+63641704 MS.gene005775:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACCTCTACTTGAGAATTAAA+AGG - chr1.3:63641689-63641708 None:intergenic 30.0%
CATGCAAAACAAAAATTTGG+TGG + chr1.3:63641895-63641914 MS.gene005775:CDS 30.0%
GTGCATGCAAAACAAAAATT+TGG + chr1.3:63641892-63641911 MS.gene005775:CDS 30.0%
!! AAAGAAGGGTATCATAAAGA+AGG + chr1.3:63641610-63641629 MS.gene005775:CDS 30.0%
!! TCCTTTTAATTCTCAAGTAG+AGG + chr1.3:63641685-63641704 MS.gene005775:CDS 30.0%
AAACTTGCCTTTATCTCCAA+TGG + chr1.3:63641557-63641576 MS.gene005775:CDS 35.0%
AACCAAGAATTTGAACCAAG+AGG + chr1.3:63641775-63641794 MS.gene005775:CDS 35.0%
AACCTACAACAAACGAAAGA+AGG + chr1.3:63641595-63641614 MS.gene005775:CDS 35.0%
ACCAAGAATTTGAACCAAGA+GGG + chr1.3:63641776-63641795 MS.gene005775:CDS 35.0%
ACCTACAACAAACGAAAGAA+GGG + chr1.3:63641596-63641615 MS.gene005775:CDS 35.0%
ATATTGCTAAAGCTAGAGAC+AGG + chr1.3:63641813-63641832 MS.gene005775:CDS 35.0%
TATTGAGAAGAAGCTGAAAG+AGG + chr1.3:63641958-63641977 MS.gene005775:CDS 35.0%
TGCTGAAGAACTGAAAGATT+TGG + chr1.3:63641928-63641947 MS.gene005775:CDS 35.0%
TTAATTCTCAAGTAGAGGTC+TGG + chr1.3:63641690-63641709 MS.gene005775:CDS 35.0%
TTTGCATGATTAAACCCTCT+TGG - chr1.3:63641793-63641812 None:intergenic 35.0%
AACGAACTCACAACTCTTTG+CGG + chr1.3:63641635-63641654 MS.gene005775:CDS 40.0%
ACCCTCTTGGTTCAAATTCT+TGG - chr1.3:63641780-63641799 None:intergenic 40.0%
GAGCAAAAAAGGTGATTGAG+AGG + chr1.3:63641726-63641745 MS.gene005775:CDS 40.0%
TAGAGACAGGCTAAGAAAGT+TGG + chr1.3:63641826-63641845 MS.gene005775:CDS 40.0%
!! ACCCTTCTTTCGTTTGTTGT+AGG - chr1.3:63641600-63641619 None:intergenic 40.0%
AGATCGAGAGGGAGCAAAAA+AGG + chr1.3:63641715-63641734 MS.gene005775:CDS 45.0%
CTTTCAGTTCTTCAGCAGTG+AGG - chr1.3:63641925-63641944 None:intergenic 45.0%
TGCCTTTATCTCCAATGGTG+CGG + chr1.3:63641562-63641581 MS.gene005775:CDS 45.0%
!!! TTTTTTGCTCCCTCTCGATC+TGG - chr1.3:63641716-63641735 None:intergenic 45.0%
TGCCGCACCATTGGAGATAA+AGG - chr1.3:63641567-63641586 None:intergenic 50.0%
TTATCTCCAATGGTGCGGCA+AGG + chr1.3:63641567-63641586 MS.gene005775:CDS 50.0%
AGAGGTCTGGCCAGATCGAG+AGG + chr1.3:63641703-63641722 MS.gene005775:CDS 60.0%
CTCCAATGGTGCGGCAAGGA+AGG + chr1.3:63641571-63641590 MS.gene005775:CDS 60.0%
GAGGTCTGGCCAGATCGAGA+GGG + chr1.3:63641704-63641723 MS.gene005775:CDS 60.0%
TGCCTTCCTTGCCGCACCAT+TGG - chr1.3:63641576-63641595 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 63641542 63642012 63641542 ID=MS.gene005775
chr1.3 mRNA 63641542 63642012 63641542 ID=MS.gene005775.t1;Parent=MS.gene005775
chr1.3 exon 63641542 63642012 63641542 ID=MS.gene005775.t1.exon1;Parent=MS.gene005775.t1
chr1.3 CDS 63641542 63642012 63641542 ID=cds.MS.gene005775.t1;Parent=MS.gene005775.t1
Gene Sequence

>MS.gene005775

ATGAGACAAAAGGTGAAACTTGCCTTTATCTCCAATGGTGCGGCAAGGAAGGCAACCTACAACAAACGAAAGAAGGGTATCATAAAGAAGGTGAACGAACTCACAACTCTTTGCGGTGTTTCTGCTTGTGCTATTATTTCAAATCCTTTTAATTCTCAAGTAGAGGTCTGGCCAGATCGAGAGGGAGCAAAAAAGGTGATTGAGAGGTATCAGAATTCATCTGTTAAAGATGAAACCAAGAATTTGAACCAAGAGGGTTTAATCATGCAAAATATTGCTAAAGCTAGAGACAGGCTAAGAAAGTTGGAAAACAAGAAATCTGAGAAAAAGATAGATCTGCTTATGTATGAGTGCATGCAAAACAAAAATTTGGTGGACAACCTCACTGCTGAAGAACTGAAAGATTTGGACGAGTTTATTGAGAAGAAGCTGAAAGAGGAAGATGATAAGATTAATGCAATTGAAACATGA
Protein sequence

>MS.gene005775.t1

MRQKVKLAFISNGAARKATYNKRKKGIIKKVNELTTLCGVSACAIISNPFNSQVEVWPDREGAKKVIERYQNSSVKDETKNLNQEGLIMQNIAKARDRLRKLENKKSEKKIDLLMYECMQNKNLVDNLTAEELKDLDEFIEKKLKEEDDKINAIET