AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene07470

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07470.t1 MTR_1g077320 94.969 159 8 0 1 159 1 159 1.11e-101 288
MS.gene07470.t1 MTR_7g011950 89.937 159 16 0 1 159 1 159 6.43e-96 274
MS.gene07470.t1 MTR_4g028720 86.792 159 21 0 1 159 1 159 1.31e-93 268
MS.gene07470.t1 MTR_1g077390 70.701 157 46 0 1 157 1 157 1.04e-78 230
MS.gene07470.t1 MTR_5g047580 70.513 156 46 0 1 156 1 156 7.06e-77 226
MS.gene07470.t1 MTR_1g084950 74.359 156 40 0 1 156 1 156 2.20e-75 222
MS.gene07470.t1 MTR_1g077300 74.843 159 38 1 1 159 1 157 1.01e-74 220
MS.gene07470.t1 MTR_1g090697 56.129 155 68 0 1 155 1 155 4.07e-59 181
MS.gene07470.t1 MTR_5g047560 58.974 156 48 1 1 156 1 140 3.19e-58 178
MS.gene07470.t1 MTR_1g090710 55.128 156 69 1 1 155 1 156 1.47e-57 177
MS.gene07470.t1 MTR_1g090783 54.902 153 69 0 3 155 2 154 7.13e-56 172
MS.gene07470.t1 MTR_3g065100 51.592 157 75 1 1 156 1 157 2.19e-41 139
MS.gene07470.t1 MTR_3g466980 45.752 153 82 1 1 152 1 153 1.28e-38 131
MS.gene07470.t1 MTR_5g075380 39.103 156 94 1 1 155 1 156 3.50e-37 125
MS.gene07470.t1 MTR_4g032620 38.065 155 94 2 1 153 1 155 8.16e-37 126
MS.gene07470.t1 MTR_4g063790 40.252 159 93 2 1 157 1 159 4.94e-35 120
MS.gene07470.t1 MTR_3g466830 42.038 157 90 1 3 158 2 158 1.30e-33 116
MS.gene07470.t1 MTR_4g031910 44.667 150 81 2 1 148 1 150 3.59e-33 117
MS.gene07470.t1 MTR_8g036130 40.252 159 91 2 1 155 1 159 8.86e-33 117
MS.gene07470.t1 MTR_3g466890 40.260 154 91 1 3 155 2 155 9.98e-31 109
MS.gene07470.t1 MTR_4g032260 43.750 160 88 2 1 158 1 160 2.69e-30 108
MS.gene07470.t1 MTR_2g016210 42.038 157 87 3 1 154 1 156 2.51e-29 107
MS.gene07470.t1 MTR_4g032290 46.000 150 79 2 1 148 1 150 3.76e-29 107
MS.gene07470.t1 MTR_3g467080 35.625 160 99 3 1 157 1 159 3.37e-28 102
MS.gene07470.t1 MTR_3g031240 34.356 163 97 3 1 157 1 159 4.51e-28 103
MS.gene07470.t1 MTR_2g035610 44.068 118 65 1 1 117 1 118 6.38e-27 98.2
MS.gene07470.t1 MTR_3g031100 35.443 158 98 3 1 155 1 157 8.33e-27 101
MS.gene07470.t1 MTR_3g465410 35.878 131 82 2 29 157 1 131 4.31e-22 86.7
MS.gene07470.t1 MTR_2g035580 32.258 155 104 1 1 154 1 155 2.02e-21 85.1
MS.gene07470.t1 MTR_3g466900 36.800 125 78 1 32 155 2 126 1.05e-19 80.1
MS.gene07470.t1 MTR_4g028800 46.575 73 37 1 1 73 1 71 6.09e-19 76.3
MS.gene07470.t1 MTR_3g466930 35.200 125 80 1 32 155 2 126 2.66e-18 76.3
MS.gene07470.t1 MTR_4g019670 35.833 120 73 2 1 116 1 120 2.49e-17 78.2
MS.gene07470.t1 MTR_7g106510 36.283 113 68 2 1 109 1 113 1.57e-16 75.9
MS.gene07470.t1 MTR_7g055800 33.333 117 51 2 1 117 1 90 2.58e-15 67.4
MS.gene07470.t1 MTR_7g055790 36.697 109 50 2 1 108 59 149 1.29e-13 64.7
MS.gene07470.t1 MTR_1g033370 41.489 94 54 1 64 156 28 121 1.72e-13 63.5
MS.gene07470.t1 MTR_1g033930 38.776 98 59 1 62 158 20 117 1.85e-13 63.5
MS.gene07470.t1 MTR_1g033790 39.796 98 58 1 62 158 20 117 6.41e-13 62.0
MS.gene07470.t1 MTR_7g055940 34.286 105 42 2 1 105 1 78 8.22e-13 60.8
MS.gene07470.t1 MTR_6g005450 31.250 112 71 3 1 106 1 112 2.00e-12 63.9
MS.gene07470.t1 MTR_3g093900 26.974 152 106 2 3 151 6 155 1.21e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07470.t1 AT5G48670 46.154 156 83 1 1 155 1 156 3.47e-35 125
MS.gene07470.t1 AT3G05860 40.268 149 88 1 1 148 1 149 2.17e-32 114
MS.gene07470.t1 AT3G05860 40.268 149 88 1 1 148 1 149 1.05e-31 114
MS.gene07470.t1 AT3G05860 40.268 149 88 1 1 148 1 149 1.81e-31 114
MS.gene07470.t1 AT5G26630 40.000 160 95 1 1 159 1 160 4.00e-31 112
MS.gene07470.t1 AT1G65300 35.374 147 94 1 3 148 2 148 5.62e-27 102
MS.gene07470.t1 AT1G65330 36.054 147 93 1 3 148 2 148 2.46e-26 100
MS.gene07470.t1 AT5G26650 34.641 153 99 1 4 155 2 154 2.45e-23 94.4
MS.gene07470.t1 AT5G27960 41.026 117 66 2 4 119 2 116 1.70e-22 91.7
MS.gene07470.t1 AT5G27810 43.750 96 53 1 29 123 1 96 4.08e-21 83.2
MS.gene07470.t1 AT2G28700 34.868 152 92 2 1 148 1 149 1.58e-20 86.3
MS.gene07470.t1 AT1G31630 31.429 140 94 2 3 141 2 140 7.91e-20 84.3
MS.gene07470.t1 AT1G22590 32.174 115 77 1 1 114 1 115 4.10e-19 79.3
MS.gene07470.t1 AT1G31640 35.294 136 86 2 3 137 2 136 1.88e-18 81.6
MS.gene07470.t1 AT5G26580 36.975 119 60 2 1 119 1 104 3.19e-17 77.4
MS.gene07470.t1 AT2G40210 38.835 103 58 2 1 100 1 101 1.53e-13 67.4
MS.gene07470.t1 AT5G58890 33.333 111 66 3 1 104 1 110 2.59e-12 63.5
MS.gene07470.t1 AT5G06500 32.877 146 85 5 1 141 1 138 7.08e-12 61.6

Find 23 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTGAATCATTAGTGATAA+AGG 0.307446 1.2:+63325693 None:intergenic
AGCTGAACATTCGTATGATT+TGG 0.323437 1.2:-63325387 MS.gene07470:CDS
GTTGCAAAAGGAAACTTTCC+TGG 0.331570 1.2:+63325467 None:intergenic
CACTAATGATTCAGCAAGAA+AGG 0.401894 1.2:-63325686 MS.gene07470:CDS
AAATCTGAAGGAAGCAAAAC+AGG 0.418438 1.2:-63325542 MS.gene07470:CDS
TCTCAGTTGATCCCTAGCTT+TGG 0.420289 1.2:+63325438 None:intergenic
CTTTGGTAATCTGTTGCAAA+AGG 0.444012 1.2:+63325455 None:intergenic
TGTTTCTGATTTGAAAGACT+TGG 0.473410 1.2:-63325329 MS.gene07470:CDS
TTTCACCTTCTTCCTCGTCA+TGG 0.482331 1.2:+63325720 None:intergenic
TCAGAAACAGTCATATCATC+TGG 0.489973 1.2:+63325343 None:intergenic
AACAGGTGATTGAGAGGTAT+CGG 0.521473 1.2:-63325525 MS.gene07470:CDS
AGAGAACTCACTATTCTTTG+TGG 0.526508 1.2:-63325622 MS.gene07470:CDS
CGAAGCCATGACGAGGAAGA+AGG 0.526668 1.2:-63325725 None:intergenic
GCAACAGATTACCAAAGCTA+GGG 0.531580 1.2:-63325449 MS.gene07470:CDS
TGCAACAGATTACCAAAGCT+AGG 0.533275 1.2:-63325450 MS.gene07470:CDS
GAAGAAAAGTATCATCAAGA+AGG 0.556586 1.2:-63325647 MS.gene07470:CDS
TCGGAAATTATAGCACATGC+TGG 0.559487 1.2:+63325595 None:intergenic
AGAGGTGTGGCCAAATCTGA+AGG 0.570010 1.2:-63325554 MS.gene07470:CDS
GAAAGGCTTCCTACAAGAAG+AGG 0.572219 1.2:-63325669 MS.gene07470:CDS
GAAGGACATTGATGACAAGA+TGG 0.586320 1.2:-63325284 MS.gene07470:CDS
AAGCAAAACAGGTGATTGAG+AGG 0.611042 1.2:-63325531 MS.gene07470:CDS
TTGATTCTAAAACAGAGGTG+TGG 0.633348 1.2:-63325567 MS.gene07470:CDS
TACAGTGCGAAGCCATGACG+AGG 0.644898 1.2:-63325732 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTTAATTGCAAAAAATATGA+AGG - chr1.2:63325677-63325696 MS.gene07470:CDS 20.0%
!!! TGTTTTAGAATCAAAAGGAT+CGG + chr1.2:63325406-63325425 None:intergenic 25.0%
TGCTGAATCATTAGTGATAA+AGG + chr1.2:63325289-63325308 None:intergenic 30.0%
! TGTTTCTGATTTGAAAGACT+TGG - chr1.2:63325650-63325669 MS.gene07470:CDS 30.0%
!! GAAGAAAAGTATCATCAAGA+AGG - chr1.2:63325332-63325351 MS.gene07470:CDS 30.0%
!!! ACCTCTGTTTTAGAATCAAA+AGG + chr1.2:63325411-63325430 None:intergenic 30.0%
!!! TCCTTTTGATTCTAAAACAG+AGG - chr1.2:63325407-63325426 MS.gene07470:CDS 30.0%
AAATCTGAAGGAAGCAAAAC+AGG - chr1.2:63325437-63325456 MS.gene07470:CDS 35.0%
AGAGAACTCACTATTCTTTG+TGG - chr1.2:63325357-63325376 MS.gene07470:CDS 35.0%
AGCTGAACATTCGTATGATT+TGG - chr1.2:63325592-63325611 MS.gene07470:CDS 35.0%
CACTAATGATTCAGCAAGAA+AGG - chr1.2:63325293-63325312 MS.gene07470:CDS 35.0%
TCAGAAACAGTCATATCATC+TGG + chr1.2:63325639-63325658 None:intergenic 35.0%
TGAGAGAAAAAATGTGAACC+AGG - chr1.2:63325494-63325513 MS.gene07470:CDS 35.0%
! ACTTTTCTTCCTCTTCTTGT+AGG + chr1.2:63325322-63325341 None:intergenic 35.0%
! CTTTGGTAATCTGTTGCAAA+AGG + chr1.2:63325527-63325546 None:intergenic 35.0%
! TGTTTTGCTTCCTTCAGATT+TGG + chr1.2:63325438-63325457 None:intergenic 35.0%
!! TTGATTCTAAAACAGAGGTG+TGG - chr1.2:63325412-63325431 MS.gene07470:CDS 35.0%
AAGCAAAACAGGTGATTGAG+AGG - chr1.2:63325448-63325467 MS.gene07470:CDS 40.0%
GCAACAGATTACCAAAGCTA+GGG - chr1.2:63325530-63325549 MS.gene07470:CDS 40.0%
GTTGCAAAAGGAAACTTTCC+TGG + chr1.2:63325515-63325534 None:intergenic 40.0%
TCGGAAATTATAGCACATGC+TGG + chr1.2:63325387-63325406 None:intergenic 40.0%
TGCAACAGATTACCAAAGCT+AGG - chr1.2:63325529-63325548 MS.gene07470:CDS 40.0%
! AACAGGTGATTGAGAGGTAT+CGG - chr1.2:63325454-63325473 MS.gene07470:CDS 40.0%
! GAAGGACATTGATGACAAGA+TGG - chr1.2:63325695-63325714 MS.gene07470:CDS 40.0%
GAAAGGCTTCCTACAAGAAG+AGG - chr1.2:63325310-63325329 MS.gene07470:CDS 45.0%
TCTCAGTTGATCCCTAGCTT+TGG + chr1.2:63325544-63325563 None:intergenic 45.0%
! AGAGGTGTGGCCAAATCTGA+AGG - chr1.2:63325425-63325444 MS.gene07470:CDS 50.0%
!!! CTGGCACTGTGTTGTTTTGC+AGG + chr1.2:63325620-63325639 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 63325261 63325740 63325261 ID=MS.gene07470
chr1.2 mRNA 63325261 63325740 63325261 ID=MS.gene07470.t1;Parent=MS.gene07470
chr1.2 exon 63325261 63325740 63325261 ID=MS.gene07470.t1.exon1;Parent=MS.gene07470.t1
chr1.2 CDS 63325261 63325740 63325261 ID=cds.MS.gene07470.t1;Parent=MS.gene07470.t1
Gene Sequence

>MS.gene07470

ATGACGAGGAAGAAGGTGAAACTCGCCTTTATCACTAATGATTCAGCAAGAAAGGCTTCCTACAAGAAGAGGAAGAAAAGTATCATCAAGAAGGTGAGAGAACTCACTATTCTTTGTGGTATTCCAGCATGTGCTATAATTTCCGATCCTTTTGATTCTAAAACAGAGGTGTGGCCAAATCTGAAGGAAGCAAAACAGGTGATTGAGAGGTATCGGAACTCATATATGAAAGATGAGAGAAAAAATGTGAACCAGGAAAGTTTCCTTTTGCAACAGATTACCAAAGCTAGGGATCAACTGAGAAAGCAAAGACAAGATAATCATGAGAATGAGCTGAACATTCGTATGATTTGGTACCTGCAAAACAACACAGTGCCAGATGATATGACTGTTTCTGATTTGAAAGACTTGGATAAGTTAATTGCAAAAAATATGAAGGACATTGATGACAAGATGGCTTCACTTAGTTTATCAAACTGA
Protein sequence

>MS.gene07470.t1

MTRKKVKLAFITNDSARKASYKKRKKSIIKKVRELTILCGIPACAIISDPFDSKTEVWPNLKEAKQVIERYRNSYMKDERKNVNQESFLLQQITKARDQLRKQRQDNHENELNIRMIWYLQNNTVPDDMTVSDLKDLDKLIAKNMKDIDDKMASLSLSN