AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene032237

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene032237.t1 MTR_1g090783 96.154 156 6 0 1 156 1 156 3.15e-108 305
MS.gene032237.t1 MTR_5g047580 66.013 153 52 0 2 154 3 155 8.05e-70 208
MS.gene032237.t1 MTR_1g090697 61.039 154 60 0 2 155 3 156 5.31e-61 186
MS.gene032237.t1 MTR_1g090710 60.645 155 60 1 2 155 3 157 6.33e-61 185
MS.gene032237.t1 MTR_1g077390 57.143 154 66 0 1 154 2 155 7.38e-59 180
MS.gene032237.t1 MTR_1g084950 63.399 153 56 0 2 154 3 155 7.93e-58 177
MS.gene032237.t1 MTR_1g077320 56.863 153 66 0 2 154 3 155 3.20e-52 163
MS.gene032237.t1 MTR_7g011950 56.209 153 67 0 2 154 3 155 1.07e-51 162
MS.gene032237.t1 MTR_4g028720 56.863 153 66 0 2 154 3 155 4.17e-51 160
MS.gene032237.t1 MTR_1g077300 57.792 154 63 1 1 154 2 153 2.33e-49 156
MS.gene032237.t1 MTR_5g047560 54.248 153 54 1 2 154 3 139 3.72e-48 152
MS.gene032237.t1 MTR_3g466830 43.312 157 88 1 1 156 1 157 1.75e-38 129
MS.gene032237.t1 MTR_3g466890 42.038 157 90 1 1 156 1 157 9.08e-37 124
MS.gene032237.t1 MTR_4g032620 39.456 147 87 2 2 146 3 149 5.69e-34 119
MS.gene032237.t1 MTR_3g466980 37.500 152 94 1 2 152 3 154 7.38e-33 116
MS.gene032237.t1 MTR_8g036130 37.975 158 94 2 2 155 3 160 8.80e-33 116
MS.gene032237.t1 MTR_3g065100 41.060 151 88 1 2 151 3 153 7.71e-30 108
MS.gene032237.t1 MTR_4g063790 41.290 155 83 4 2 151 3 154 1.29e-29 106
MS.gene032237.t1 MTR_4g031910 40.260 154 90 2 2 153 3 156 4.25e-29 106
MS.gene032237.t1 MTR_3g031240 37.975 158 92 4 2 155 3 158 7.01e-27 99.8
MS.gene032237.t1 MTR_2g016210 37.419 155 95 2 3 155 4 158 1.26e-26 100
MS.gene032237.t1 MTR_5g075380 32.468 154 103 1 3 155 4 157 2.71e-26 97.8
MS.gene032237.t1 MTR_3g466900 38.583 127 77 1 31 156 2 128 8.01e-26 95.5
MS.gene032237.t1 MTR_2g035610 40.336 119 70 1 2 119 3 121 8.80e-26 95.1
MS.gene032237.t1 MTR_3g031100 36.709 158 96 3 2 156 3 159 1.45e-24 95.5
MS.gene032237.t1 MTR_4g028800 57.143 70 28 1 3 72 4 71 4.90e-24 89.4
MS.gene032237.t1 MTR_4g032260 40.541 148 86 2 1 146 2 149 1.31e-23 90.9
MS.gene032237.t1 MTR_3g466930 36.220 127 80 1 31 156 2 128 2.87e-23 89.0
MS.gene032237.t1 MTR_3g467080 31.613 155 104 2 2 154 3 157 9.30e-23 88.6
MS.gene032237.t1 MTR_4g032290 39.610 154 91 2 2 153 3 156 5.96e-22 88.2
MS.gene032237.t1 MTR_2g035580 34.641 153 99 1 5 156 6 158 1.31e-21 85.5
MS.gene032237.t1 MTR_3g465410 33.884 121 78 2 28 146 1 121 1.16e-16 72.4
MS.gene032237.t1 MTR_1g033930 42.056 107 55 3 55 154 8 114 6.86e-15 67.0
MS.gene032237.t1 MTR_4g019670 25.517 145 107 1 2 145 6 150 1.02e-14 70.5
MS.gene032237.t1 MTR_1g033370 40.206 97 57 1 56 151 21 117 1.80e-14 66.2
MS.gene032237.t1 MTR_7g106510 25.175 143 100 1 2 144 6 141 6.98e-14 68.2
MS.gene032237.t1 MTR_3g093900 24.516 155 116 1 2 155 6 160 1.01e-13 67.8
MS.gene032237.t1 MTR_1g033790 42.308 104 53 3 55 151 8 111 4.51e-13 62.4
MS.gene032237.t1 MTR_7g055800 32.955 88 45 1 30 117 18 91 1.34e-12 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.gene032237.t1 AT1G65300 44.828 145 79 1 1 144 1 145 2.60e-38 132
MS.gene032237.t1 AT1G65330 45.517 145 78 1 1 144 1 145 1.65e-37 129
MS.gene032237.t1 AT3G05860 40.411 146 86 1 2 146 3 148 7.79e-32 113
MS.gene032237.t1 AT3G05860 40.411 146 86 1 2 146 3 148 2.30e-31 113
MS.gene032237.t1 AT3G05860 40.411 146 86 1 2 146 3 148 2.91e-31 113
MS.gene032237.t1 AT5G26630 41.722 151 87 1 2 151 3 153 3.98e-31 111
MS.gene032237.t1 AT5G26650 40.132 152 90 1 4 154 3 154 1.29e-30 113
MS.gene032237.t1 AT5G48670 41.722 151 87 1 2 151 3 153 5.15e-30 111
MS.gene032237.t1 AT5G27960 38.816 152 92 1 4 154 3 154 1.51e-28 107
MS.gene032237.t1 AT1G31630 32.895 152 100 2 1 151 1 151 1.04e-26 102
MS.gene032237.t1 AT1G31640 34.014 147 95 2 1 146 1 146 3.91e-23 94.4
MS.gene032237.t1 AT1G22590 32.903 155 102 1 2 156 3 155 4.33e-21 84.3
MS.gene032237.t1 AT5G26580 33.784 148 85 1 4 151 5 139 4.09e-19 82.4
MS.gene032237.t1 AT5G27810 36.559 93 58 1 28 119 1 93 4.71e-19 77.8
MS.gene032237.t1 AT2G28700 30.137 146 99 3 2 145 3 147 6.26e-18 79.0
MS.gene032237.t1 AT5G06500 30.612 147 94 4 2 144 3 145 9.25e-13 63.9
MS.gene032237.t1 AT2G40210 32.857 140 90 3 2 139 3 140 4.95e-11 60.1

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 1.2:-68099564 None:intergenic
ACCTCTACTTGAGAATTAAA+AGG 0.282594 1.2:-68099473 None:intergenic
ACCCTTCTTTCGTTTGTTGT+AGG 0.315510 1.2:-68099384 None:intergenic
TGCTGAAGAACTGAAAGATT+TGG 0.330899 1.2:+68099715 MS.gene032237:CDS
TGCCGCACCATTGGAGATAA+AGG 0.336190 1.2:-68099351 None:intergenic
TGCCTTCCTTGCCGCACCAT+TGG 0.403210 1.2:-68099360 None:intergenic
TTAATTCTCAAGTAGAGGTC+TGG 0.432525 1.2:+68099477 MS.gene032237:CDS
TATTGAGAAGAAGCTGAAAG+AGG 0.440765 1.2:+68099745 MS.gene032237:CDS
AAAGAACTCACAACTCTTTG+TGG 0.452870 1.2:+68099422 MS.gene032237:CDS
AACCTACAACAAACGAAAGA+AGG 0.478774 1.2:+68099382 MS.gene032237:CDS
TTTGCATGATTAAACCCTCT+TGG 0.480889 1.2:-68099577 None:intergenic
CTCCAATGGTGCGGCAAGGA+AGG 0.499386 1.2:+68099358 MS.gene032237:CDS
AAACTTGCCTTTATCTCCAA+TGG 0.509814 1.2:+68099344 MS.gene032237:CDS
ACCAAGAATTTGAACCAAGA+GGG 0.512184 1.2:+68099563 MS.gene032237:CDS
CGACGTAGCCATGAGACAAA+AGG 0.530990 1.2:+68099319 None:intergenic
TAGAGACCGGCTAAGAAAGT+TGG 0.534113 1.2:+68099613 MS.gene032237:CDS
AAAGAAGGGTATCATAAAGA+AGG 0.534887 1.2:+68099397 MS.gene032237:CDS
AGAGGTCTGGCCAGATCGAG+AGG 0.578371 1.2:+68099490 MS.gene032237:CDS
TGCCTTTATCTCCAATGGTG+CGG 0.586809 1.2:+68099349 MS.gene032237:CDS
ATATTGCTAAAGCTAGAGAC+CGG 0.607356 1.2:+68099600 MS.gene032237:CDS
TTATCTCCAATGGTGCGGCA+AGG 0.627345 1.2:+68099354 MS.gene032237:CDS
CTTTCAGTTCTTCAGCAGTG+AGG 0.630045 1.2:-68099709 None:intergenic
AACCAAGAATTTGAACCAAG+AGG 0.635779 1.2:+68099562 MS.gene032237:CDS
ACCTACAACAAACGAAAGAA+GGG 0.643388 1.2:+68099383 MS.gene032237:CDS
GAGGTCTGGCCAGATCGAGA+GGG 0.647218 1.2:+68099491 MS.gene032237:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACCTCTACTTGAGAATTAAA+AGG - chr1.2:68099476-68099495 None:intergenic 30.0%
CATGCAAAACAAAAATTTGG+TGG + chr1.2:68099682-68099701 MS.gene032237:CDS 30.0%
GTGCATGCAAAACAAAAATT+TGG + chr1.2:68099679-68099698 MS.gene032237:CDS 30.0%
!! AAAGAAGGGTATCATAAAGA+AGG + chr1.2:68099397-68099416 MS.gene032237:CDS 30.0%
!! TCCTTTTAATTCTCAAGTAG+AGG + chr1.2:68099472-68099491 MS.gene032237:CDS 30.0%
AAACTTGCCTTTATCTCCAA+TGG + chr1.2:68099344-68099363 MS.gene032237:CDS 35.0%
AAAGAACTCACAACTCTTTG+TGG + chr1.2:68099422-68099441 MS.gene032237:CDS 35.0%
AACCAAGAATTTGAACCAAG+AGG + chr1.2:68099562-68099581 MS.gene032237:CDS 35.0%
AACCTACAACAAACGAAAGA+AGG + chr1.2:68099382-68099401 MS.gene032237:CDS 35.0%
ACCAAGAATTTGAACCAAGA+GGG + chr1.2:68099563-68099582 MS.gene032237:CDS 35.0%
ACCTACAACAAACGAAAGAA+GGG + chr1.2:68099383-68099402 MS.gene032237:CDS 35.0%
ATATTGCTAAAGCTAGAGAC+CGG + chr1.2:68099600-68099619 MS.gene032237:CDS 35.0%
TATTGAGAAGAAGCTGAAAG+AGG + chr1.2:68099745-68099764 MS.gene032237:CDS 35.0%
TGCTGAAGAACTGAAAGATT+TGG + chr1.2:68099715-68099734 MS.gene032237:CDS 35.0%
TTAATTCTCAAGTAGAGGTC+TGG + chr1.2:68099477-68099496 MS.gene032237:CDS 35.0%
TTTGCATGATTAAACCCTCT+TGG - chr1.2:68099580-68099599 None:intergenic 35.0%
! AGCAGATCTATCTTTTTCTC+AGG - chr1.2:68099650-68099669 None:intergenic 35.0%
! TGTTTTCCAACTTTCTTAGC+CGG - chr1.2:68099622-68099641 None:intergenic 35.0%
ACCCTCTTGGTTCAAATTCT+TGG - chr1.2:68099567-68099586 None:intergenic 40.0%
GAGCAAAAAAGGTGATTGAG+AGG + chr1.2:68099513-68099532 MS.gene032237:CDS 40.0%
!! ACCCTTCTTTCGTTTGTTGT+AGG - chr1.2:68099387-68099406 None:intergenic 40.0%
AGATCGAGAGGGAGCAAAAA+AGG + chr1.2:68099502-68099521 MS.gene032237:CDS 45.0%
CTTTCAGTTCTTCAGCAGTG+AGG - chr1.2:68099712-68099731 None:intergenic 45.0%
TAGAGACCGGCTAAGAAAGT+TGG + chr1.2:68099613-68099632 MS.gene032237:CDS 45.0%
TGCCTTTATCTCCAATGGTG+CGG + chr1.2:68099349-68099368 MS.gene032237:CDS 45.0%
!!! TTTTTTGCTCCCTCTCGATC+TGG - chr1.2:68099503-68099522 None:intergenic 45.0%
TGCCGCACCATTGGAGATAA+AGG - chr1.2:68099354-68099373 None:intergenic 50.0%
TTATCTCCAATGGTGCGGCA+AGG + chr1.2:68099354-68099373 MS.gene032237:CDS 50.0%
AGAGGTCTGGCCAGATCGAG+AGG + chr1.2:68099490-68099509 MS.gene032237:CDS 60.0%
CTCCAATGGTGCGGCAAGGA+AGG + chr1.2:68099358-68099377 MS.gene032237:CDS 60.0%
GAGGTCTGGCCAGATCGAGA+GGG + chr1.2:68099491-68099510 MS.gene032237:CDS 60.0%
TGCCTTCCTTGCCGCACCAT+TGG - chr1.2:68099363-68099382 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 68099329 68099799 68099329 ID=MS.gene032237
chr1.2 mRNA 68099329 68099799 68099329 ID=MS.gene032237.t1;Parent=MS.gene032237
chr1.2 exon 68099329 68099799 68099329 ID=MS.gene032237.t1.exon1;Parent=MS.gene032237.t1
chr1.2 CDS 68099329 68099799 68099329 ID=cds.MS.gene032237.t1;Parent=MS.gene032237.t1
Gene Sequence

>MS.gene032237

ATGAGACAAAAGGTGAAACTTGCCTTTATCTCCAATGGTGCGGCAAGGAAGGCAACCTACAACAAACGAAAGAAGGGTATCATAAAGAAGGTGAAAGAACTCACAACTCTTTGTGGTGTTTCTGCTTGTGCTATTATTTCAAATCCTTTTAATTCTCAAGTAGAGGTCTGGCCAGATCGAGAGGGAGCAAAAAAGGTGATTGAGAGGTATCAGAATTCATCTGTTAAAGATGAAACCAAGAATTTGAACCAAGAGGGTTTAATCATGCAAAATATTGCTAAAGCTAGAGACCGGCTAAGAAAGTTGGAAAACAAGAAACCTGAGAAAAAGATAGATCTGCTTATGTATGAGTGCATGCAAAACAAAAATTTGGTGGACAACCTCACTGCTGAAGAACTGAAAGATTTGGATGAGTTTATTGAGAAGAAGCTGAAAGAGGAAGATGATAAGATTAATGCAATTGAAACATGA
Protein sequence

>MS.gene032237.t1

MRQKVKLAFISNGAARKATYNKRKKGIIKKVKELTTLCGVSACAIISNPFNSQVEVWPDREGAKKVIERYQNSSVKDETKNLNQEGLIMQNIAKARDRLRKLENKKPEKKIDLLMYECMQNKNLVDNLTAEELKDLDEFIEKKLKEEDDKINAIET