AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene68102

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene68102.t1 MTR_1g090783 94.872 156 8 0 1 156 1 156 4.84e-107 302
MS.gene68102.t1 MTR_5g047580 66.013 153 52 0 2 154 3 155 7.87e-70 208
MS.gene68102.t1 MTR_1g090710 60.000 155 61 1 2 155 3 157 3.23e-60 184
MS.gene68102.t1 MTR_1g090697 60.390 154 61 0 2 155 3 156 7.84e-60 182
MS.gene68102.t1 MTR_1g077390 57.792 154 65 0 1 154 2 155 2.67e-59 181
MS.gene68102.t1 MTR_1g084950 63.399 153 56 0 2 154 3 155 1.05e-57 177
MS.gene68102.t1 MTR_1g077320 56.863 153 66 0 2 154 3 155 3.27e-52 163
MS.gene68102.t1 MTR_7g011950 56.209 153 67 0 2 154 3 155 1.66e-51 161
MS.gene68102.t1 MTR_4g028720 56.863 153 66 0 2 154 3 155 5.91e-51 160
MS.gene68102.t1 MTR_1g077300 57.792 154 63 1 1 154 2 153 4.34e-49 155
MS.gene68102.t1 MTR_5g047560 54.248 153 54 1 2 154 3 139 3.76e-48 152
MS.gene68102.t1 MTR_3g466830 43.312 157 88 1 1 156 1 157 1.96e-37 126
MS.gene68102.t1 MTR_3g466890 42.038 157 90 1 1 156 1 157 4.54e-36 122
MS.gene68102.t1 MTR_4g032620 38.776 147 88 2 2 146 3 149 9.43e-34 119
MS.gene68102.t1 MTR_3g466980 36.842 152 95 1 2 152 3 154 1.92e-32 115
MS.gene68102.t1 MTR_8g036130 37.342 158 95 2 2 155 3 160 3.19e-32 115
MS.gene68102.t1 MTR_4g063790 41.935 155 82 4 2 151 3 154 7.93e-30 107
MS.gene68102.t1 MTR_3g065100 41.781 146 84 1 2 146 3 148 2.13e-29 107
MS.gene68102.t1 MTR_4g031910 39.610 154 91 2 2 153 3 156 2.21e-28 105
MS.gene68102.t1 MTR_2g016210 38.065 155 94 2 3 155 4 158 6.57e-27 101
MS.gene68102.t1 MTR_3g031240 37.975 158 92 4 2 155 3 158 1.00e-26 99.4
MS.gene68102.t1 MTR_5g075380 32.468 154 103 1 3 155 4 157 1.80e-26 98.2
MS.gene68102.t1 MTR_3g466900 38.583 127 77 1 31 156 2 128 3.89e-25 94.0
MS.gene68102.t1 MTR_2g035610 39.496 119 71 1 2 119 3 121 5.67e-25 93.2
MS.gene68102.t1 MTR_3g031100 36.076 158 97 3 2 156 3 159 3.58e-24 94.4
MS.gene68102.t1 MTR_4g028800 57.143 70 28 1 3 72 4 71 5.64e-24 89.0
MS.gene68102.t1 MTR_3g467080 32.258 155 103 2 2 154 3 157 8.08e-23 89.0
MS.gene68102.t1 MTR_4g032260 39.865 148 87 2 1 146 2 149 8.32e-23 88.6
MS.gene68102.t1 MTR_3g466930 36.220 127 80 1 31 156 2 128 1.42e-22 87.4
MS.gene68102.t1 MTR_2g035580 34.641 153 99 1 5 156 6 158 2.71e-21 84.7
MS.gene68102.t1 MTR_4g032290 38.961 154 92 2 2 153 3 156 3.52e-21 86.3
MS.gene68102.t1 MTR_3g465410 34.711 121 77 2 28 146 1 121 6.29e-17 73.2
MS.gene68102.t1 MTR_4g019670 26.207 145 106 1 2 145 6 150 1.14e-14 70.5
MS.gene68102.t1 MTR_7g106510 26.174 149 91 3 2 144 6 141 1.05e-13 67.8
MS.gene68102.t1 MTR_1g033930 40.187 107 57 3 55 154 8 114 1.83e-13 63.5
MS.gene68102.t1 MTR_3g093900 23.871 155 117 1 2 155 6 160 1.84e-13 67.0
MS.gene68102.t1 MTR_1g033370 38.144 97 59 1 56 151 21 117 5.35e-13 62.4
MS.gene68102.t1 MTR_7g055800 31.818 88 46 1 30 117 18 91 6.31e-12 58.5
MS.gene68102.t1 MTR_1g033790 40.385 104 55 3 55 151 8 111 1.18e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene68102.t1 AT1G65300 44.828 145 79 1 1 144 1 145 2.35e-37 129
MS.gene68102.t1 AT1G65330 45.517 145 78 1 1 144 1 145 1.35e-36 127
MS.gene68102.t1 AT3G05860 40.411 146 86 1 2 146 3 148 1.47e-31 112
MS.gene68102.t1 AT3G05860 40.411 146 86 1 2 146 3 148 4.62e-31 112
MS.gene68102.t1 AT3G05860 40.411 146 86 1 2 146 3 148 5.71e-31 112
MS.gene68102.t1 AT5G26630 41.060 151 88 1 2 151 3 153 5.54e-30 108
MS.gene68102.t1 AT5G48670 41.060 151 88 1 2 151 3 153 7.29e-30 110
MS.gene68102.t1 AT5G26650 38.816 152 92 1 4 154 3 154 2.36e-29 110
MS.gene68102.t1 AT5G27960 37.500 152 94 1 4 154 3 154 3.01e-27 103
MS.gene68102.t1 AT1G31630 32.237 152 101 2 1 151 1 151 9.03e-26 100
MS.gene68102.t1 AT1G31640 33.333 147 96 2 1 146 1 146 3.01e-22 92.0
MS.gene68102.t1 AT1G22590 32.903 155 102 1 2 156 3 155 2.76e-21 85.1
MS.gene68102.t1 AT5G27810 36.559 93 58 1 28 119 1 93 9.38e-19 77.0
MS.gene68102.t1 AT2G28700 30.822 146 98 3 2 145 3 147 3.70e-18 79.7
MS.gene68102.t1 AT5G26580 32.432 148 87 1 4 151 5 139 1.06e-17 78.6
MS.gene68102.t1 AT5G06500 29.167 144 100 2 2 144 3 145 7.55e-13 64.3
MS.gene68102.t1 AT2G40210 32.857 140 90 3 2 139 3 140 7.08e-11 59.7

Find 25 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCCTCTTGGTTCAAATTCT+TGG 0.209087 1.1:-66331477 None:intergenic
ACCTCTACTTGAGAATTAAA+AGG 0.282594 1.1:-66331386 None:intergenic
ACCCTTCTTTCGTTTGTTGT+AGG 0.315510 1.1:-66331297 None:intergenic
TGCCGCACCATTGGAGATAA+AGG 0.336190 1.1:-66331264 None:intergenic
TGTTGAAGAACTGAAAGATT+TGG 0.391283 1.1:+66331628 MS.gene68102:CDS
TGCCTTCCTTGCCGCACCAT+TGG 0.403210 1.1:-66331273 None:intergenic
TTAATTCTCAAGTAGAGGTC+TGG 0.432525 1.1:+66331390 MS.gene68102:CDS
TATTGAGAAGAAGCTGAAAG+AGG 0.440765 1.1:+66331658 MS.gene68102:CDS
AAAGAACTCACAACTCTTTG+TGG 0.452870 1.1:+66331335 MS.gene68102:CDS
AACCTACAACAAACGAAAGA+AGG 0.478774 1.1:+66331295 MS.gene68102:CDS
TAGAGACCGGCTAAGAAAGT+TGG 0.479769 1.1:+66331526 MS.gene68102:CDS
TTTGCATGATTAAACCCTCT+TGG 0.480889 1.1:-66331490 None:intergenic
CTCCAATGGTGCGGCAAGGA+AGG 0.499386 1.1:+66331271 MS.gene68102:CDS
AAACTTGCCTTTATCTCCAA+TGG 0.509814 1.1:+66331257 MS.gene68102:CDS
ACCAAGAATTTGAACCAAGA+GGG 0.512184 1.1:+66331476 MS.gene68102:CDS
CGACGTAGCCATGAGACAAA+AGG 0.530990 1.1:+66331232 None:intergenic
AAAGAAGGGTATCATAAAGA+AGG 0.534887 1.1:+66331310 MS.gene68102:CDS
AGAGGTCTGGCCAGATCGAG+AGG 0.578371 1.1:+66331403 MS.gene68102:CDS
TGCCTTTATCTCCAATGGTG+CGG 0.586809 1.1:+66331262 MS.gene68102:CDS
ATATTGCTAAAGTTAGAGAC+CGG 0.614209 1.1:+66331513 MS.gene68102:CDS
CTTTCAGTTCTTCAACAGTG+AGG 0.620860 1.1:-66331622 None:intergenic
TTATCTCCAATGGTGCGGCA+AGG 0.627345 1.1:+66331267 MS.gene68102:CDS
AACCAAGAATTTGAACCAAG+AGG 0.635779 1.1:+66331475 MS.gene68102:CDS
ACCTACAACAAACGAAAGAA+GGG 0.643388 1.1:+66331296 MS.gene68102:CDS
GAGGTCTGGCCAGATCGAGA+GGG 0.647218 1.1:+66331404 MS.gene68102:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACCTCTACTTGAGAATTAAA+AGG - chr1.1:66331389-66331408 None:intergenic 30.0%
ATATTGCTAAAGTTAGAGAC+CGG + chr1.1:66331513-66331532 MS.gene68102:CDS 30.0%
CATGCAAAACAAAAATTTGG+TGG + chr1.1:66331595-66331614 MS.gene68102:CDS 30.0%
GTGCATGCAAAACAAAAATT+TGG + chr1.1:66331592-66331611 MS.gene68102:CDS 30.0%
TGTTGAAGAACTGAAAGATT+TGG + chr1.1:66331628-66331647 MS.gene68102:CDS 30.0%
!! AAAGAAGGGTATCATAAAGA+AGG + chr1.1:66331310-66331329 MS.gene68102:CDS 30.0%
!! TCCTTTTAATTCTCAAGTAG+AGG + chr1.1:66331385-66331404 MS.gene68102:CDS 30.0%
AAACTTGCCTTTATCTCCAA+TGG + chr1.1:66331257-66331276 MS.gene68102:CDS 35.0%
AAAGAACTCACAACTCTTTG+TGG + chr1.1:66331335-66331354 MS.gene68102:CDS 35.0%
AACCAAGAATTTGAACCAAG+AGG + chr1.1:66331475-66331494 MS.gene68102:CDS 35.0%
AACCTACAACAAACGAAAGA+AGG + chr1.1:66331295-66331314 MS.gene68102:CDS 35.0%
ACCAAGAATTTGAACCAAGA+GGG + chr1.1:66331476-66331495 MS.gene68102:CDS 35.0%
ACCTACAACAAACGAAAGAA+GGG + chr1.1:66331296-66331315 MS.gene68102:CDS 35.0%
TATTGAGAAGAAGCTGAAAG+AGG + chr1.1:66331658-66331677 MS.gene68102:CDS 35.0%
TTAATTCTCAAGTAGAGGTC+TGG + chr1.1:66331390-66331409 MS.gene68102:CDS 35.0%
TTTGCATGATTAAACCCTCT+TGG - chr1.1:66331493-66331512 None:intergenic 35.0%
! AGCAGATCTATCTTTTTCTC+AGG - chr1.1:66331563-66331582 None:intergenic 35.0%
! TGTTTTCCAACTTTCTTAGC+CGG - chr1.1:66331535-66331554 None:intergenic 35.0%
ACCCTCTTGGTTCAAATTCT+TGG - chr1.1:66331480-66331499 None:intergenic 40.0%
CTTTCAGTTCTTCAACAGTG+AGG - chr1.1:66331625-66331644 None:intergenic 40.0%
GAGCAAAAAAGGTGATTGAG+AGG + chr1.1:66331426-66331445 MS.gene68102:CDS 40.0%
!! ACCCTTCTTTCGTTTGTTGT+AGG - chr1.1:66331300-66331319 None:intergenic 40.0%
AGATCGAGAGGGAGCAAAAA+AGG + chr1.1:66331415-66331434 MS.gene68102:CDS 45.0%
TAGAGACCGGCTAAGAAAGT+TGG + chr1.1:66331526-66331545 MS.gene68102:CDS 45.0%
TGCCTTTATCTCCAATGGTG+CGG + chr1.1:66331262-66331281 MS.gene68102:CDS 45.0%
!!! TTTTTTGCTCCCTCTCGATC+TGG - chr1.1:66331416-66331435 None:intergenic 45.0%
TGCCGCACCATTGGAGATAA+AGG - chr1.1:66331267-66331286 None:intergenic 50.0%
TTATCTCCAATGGTGCGGCA+AGG + chr1.1:66331267-66331286 MS.gene68102:CDS 50.0%
AGAGGTCTGGCCAGATCGAG+AGG + chr1.1:66331403-66331422 MS.gene68102:CDS 60.0%
CTCCAATGGTGCGGCAAGGA+AGG + chr1.1:66331271-66331290 MS.gene68102:CDS 60.0%
GAGGTCTGGCCAGATCGAGA+GGG + chr1.1:66331404-66331423 MS.gene68102:CDS 60.0%
TGCCTTCCTTGCCGCACCAT+TGG - chr1.1:66331276-66331295 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 66331242 66331712 66331242 ID=MS.gene68102
chr1.1 mRNA 66331242 66331712 66331242 ID=MS.gene68102.t1;Parent=MS.gene68102
chr1.1 exon 66331242 66331712 66331242 ID=MS.gene68102.t1.exon1;Parent=MS.gene68102.t1
chr1.1 CDS 66331242 66331712 66331242 ID=cds.MS.gene68102.t1;Parent=MS.gene68102.t1
Gene Sequence

>MS.gene68102

ATGAGACAAAAGGTGAAACTTGCCTTTATCTCCAATGGTGCGGCAAGGAAGGCAACCTACAACAAACGAAAGAAGGGTATCATAAAGAAGGTGAAAGAACTCACAACTCTTTGTGGTGTTTCTGCTTGTGCTATTATTTCAAATCCTTTTAATTCTCAAGTAGAGGTCTGGCCAGATCGAGAGGGAGCAAAAAAGGTGATTGAGAGGTATCAGAATTCATCTGTTAAAGATGAAACCAAGAATTTGAACCAAGAGGGTTTAATCATGCAAAATATTGCTAAAGTTAGAGACCGGCTAAGAAAGTTGGAAAACAAGAAACCTGAGAAAAAGATAGATCTGCTTATGTATGAGTGCATGCAAAACAAAAATTTGGTGGACAACCTCACTGTTGAAGAACTGAAAGATTTGGATGAGTTTATTGAGAAGAAGCTGAAAGAGGAAGATGATAAGATTAATGCAATTGAAACATGA
Protein sequence

>MS.gene68102.t1

MRQKVKLAFISNGAARKATYNKRKKGIIKKVKELTTLCGVSACAIISNPFNSQVEVWPDREGAKKVIERYQNSSVKDETKNLNQEGLIMQNIAKVRDRLRKLENKKPEKKIDLLMYECMQNKNLVDNLTVEELKDLDEFIEKKLKEEDDKINAIET