AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene007708

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene007708.t1 MTR_4g057810 89.565 115 12 0 1 115 1 115 1.05e-73 214
MS.gene007708.t1 MTR_4g057800 82.727 110 17 1 1 108 1 110 4.60e-63 188
MS.gene007708.t1 MTR_2g095430 57.143 105 39 2 5 107 16 116 2.68e-39 128
MS.gene007708.t1 MTR_1g063300 43.956 91 51 0 13 103 14 104 2.82e-21 81.6
MS.gene007708.t1 MTR_1g063290 41.758 91 53 0 13 103 14 104 8.29e-21 80.5
MS.gene007708.t1 MTR_1g063340 47.368 76 40 0 26 101 20 95 1.63e-20 79.7
MS.gene007708.t1 MTR_1g063330 46.053 76 41 0 26 101 20 95 7.75e-20 77.8
MS.gene007708.t1 MTR_1g063280 51.429 70 34 0 34 103 38 107 1.09e-19 77.8
MS.gene007708.t1 MTR_7g101890 44.304 79 44 0 28 106 42 120 5.26e-19 76.6
MS.gene007708.t1 MTR_1g063260 48.571 70 36 0 34 103 37 106 1.66e-18 74.7
MS.gene007708.t1 MTR_7g101920 44.595 74 41 0 33 106 30 103 3.62e-18 73.9
MS.gene007708.t1 MTR_1g063310 40.698 86 48 1 16 101 7 89 1.97e-17 72.0
MS.gene007708.t1 MTR_8g076040 39.189 74 43 1 26 99 29 100 1.14e-13 62.4
MS.gene007708.t1 MTR_7g118010 42.188 64 37 0 36 99 21 84 3.21e-13 61.2
MS.gene007708.t1 MTR_4g072190 37.778 90 48 3 11 99 13 95 4.74e-13 60.5
MS.gene007708.t1 MTR_3g092220 37.500 64 40 0 36 99 31 94 5.59e-13 60.8
MS.gene007708.t1 MTR_8g026730 40.625 64 38 0 36 99 25 88 1.44e-12 59.7
MS.gene007708.t1 MTR_4g072160 40.206 97 52 3 4 100 7 97 1.77e-12 60.1
MS.gene007708.t1 MTR_3g117610 36.364 99 54 4 1 92 1 97 2.18e-12 59.3
MS.gene007708.t1 MTR_4g072910 38.298 94 44 5 6 96 10 92 3.17e-12 58.5
MS.gene007708.t1 MTR_4g072570 36.905 84 50 2 17 99 4 85 3.86e-12 58.2
MS.gene007708.t1 MTR_0388s0020 43.750 64 35 1 37 99 74 137 4.81e-12 59.3
MS.gene007708.t1 MTR_3g113310 35.714 98 54 3 2 99 13 101 6.78e-12 57.8
MS.gene007708.t1 MTR_5g021820 41.379 58 32 1 34 91 36 91 7.94e-12 57.4
MS.gene007708.t1 MTR_4g072330 40.278 72 40 2 26 96 11 80 2.06e-11 56.2
MS.gene007708.t1 MTR_2g043960 36.250 80 43 2 37 110 75 152 2.58e-11 57.4
MS.gene007708.t1 MTR_3g117640 43.284 67 36 2 37 102 33 98 3.32e-11 55.8
MS.gene007708.t1 MTR_4g124750 33.673 98 58 3 5 100 37 129 3.54e-11 57.0
MS.gene007708.t1 MTR_4g025830 39.683 63 37 1 38 99 79 141 3.82e-11 57.0
MS.gene007708.t1 MTR_8g461210 35.227 88 52 3 17 101 11 96 5.76e-11 55.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene007708.t1 AT2G28085 48.148 108 49 3 4 104 16 123 1.03e-25 93.6
MS.gene007708.t1 AT3G09870 47.945 73 38 0 29 101 36 108 6.04e-18 73.6
MS.gene007708.t1 AT3G61900 34.286 105 65 2 16 116 5 109 2.50e-15 67.4
MS.gene007708.t1 AT5G53590 44.118 68 35 1 37 101 45 112 3.72e-13 62.0
MS.gene007708.t1 AT4G34800 43.421 76 41 2 27 100 10 85 5.45e-13 60.5
MS.gene007708.t1 AT4G12410 37.805 82 47 2 19 99 60 138 6.80e-13 61.6
MS.gene007708.t1 AT2G46690 35.366 82 52 1 19 99 5 86 1.03e-12 60.5
MS.gene007708.t1 AT2G21220 49.091 55 26 1 37 91 39 91 1.16e-12 59.7
MS.gene007708.t1 AT1G75580 40.000 90 47 3 2 91 13 95 3.21e-12 58.9
MS.gene007708.t1 AT4G34810 39.759 83 46 3 27 105 36 118 4.52e-12 58.5
MS.gene007708.t1 AT4G34790 45.000 60 32 1 38 96 39 98 5.04e-12 58.2
MS.gene007708.t1 AT1G19830 39.726 73 42 1 37 109 47 117 7.98e-12 57.8
MS.gene007708.t1 AT5G66260 42.188 64 35 1 38 101 34 95 8.90e-12 57.4
MS.gene007708.t1 AT4G34760 42.857 63 34 1 37 99 42 102 1.85e-11 56.6
MS.gene007708.t1 AT4G38860 48.214 56 26 2 37 91 39 92 1.89e-11 56.6
MS.gene007708.t1 AT2G37030 41.270 63 35 1 34 96 45 105 3.49e-11 56.6
MS.gene007708.t1 AT5G20810 36.364 88 51 2 30 114 71 156 3.67e-11 57.4
MS.gene007708.t1 AT4G34780 43.548 62 33 2 37 96 27 88 4.41e-11 55.8
MS.gene007708.t1 AT5G20810 36.471 85 49 2 30 111 71 153 6.69e-11 57.0
MS.gene007708.t1 AT3G43120 40.625 64 36 1 37 100 78 139 6.99e-11 56.6

Find 19 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATCATTTCTTCCCATTAAT+AGG 0.172378 4.3:-43280145 None:intergenic
TCCAATAGCCTCACAAATAT+TGG 0.203520 4.3:-43280278 None:intergenic
CCCAATATTTGTGAGGCTAT+TGG 0.277315 4.3:+43280277 MS.gene007708:CDS
ATCATTTCTTCCCATTAATA+GGG 0.284308 4.3:-43280144 None:intergenic
GCTGAAAAGTATGGATTTAA+TGG 0.293311 4.3:+43280308 MS.gene007708:CDS
CCAATAGCCTCACAAATATT+GGG 0.327708 4.3:-43280277 None:intergenic
TAATGAATTTCAGATGATAT+TGG 0.337284 4.3:+43280361 MS.gene007708:CDS
AATATCCACTAGGTCGTCTA+TGG 0.384725 4.3:-43280405 None:intergenic
GAACAAGCAGCTGAAAAGTA+TGG 0.387212 4.3:+43280299 MS.gene007708:CDS
AATATCATCTGAAATTCATT+AGG 0.418147 4.3:-43280359 None:intergenic
GAATTCAAAATGGCTGTTGT+AGG 0.451487 4.3:+43280074 None:intergenic
GGGTTTGTTAAACAACTCAA+TGG 0.477349 4.3:-43280257 None:intergenic
TTCAAAATGGCTGTTGTAGG+TGG 0.541060 4.3:+43280077 None:intergenic
GAAGAAATGATAATAAATCA+AGG 0.559372 4.3:+43280156 MS.gene007708:CDS
TAACAAACCCAATATTTGTG+AGG 0.586788 4.3:+43280270 MS.gene007708:CDS
AAGTATGGATTTAATGGAGA+TGG 0.588044 4.3:+43280314 MS.gene007708:CDS
TTTAACTTGAAATATCCACT+AGG 0.647972 4.3:-43280415 None:intergenic
TGAAATTCATTAGGTCGACA+AGG 0.660069 4.3:-43280350 None:intergenic
TGAAGCCATAGACGACCTAG+TGG 0.666615 4.3:+43280400 MS.gene007708:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAGAAATGATAATAAATCA+AGG + chr4.3:43280156-43280175 MS.gene007708:CDS 20.0%
!! TAATGAATTTCAGATGATAT+TGG + chr4.3:43280361-43280380 MS.gene007708:CDS 20.0%
!!! AATATCATCTGAAATTCATT+AGG - chr4.3:43280362-43280381 None:intergenic 20.0%
! ATCATTTCTTCCCATTAATA+GGG - chr4.3:43280147-43280166 None:intergenic 25.0%
! TATCATTTCTTCCCATTAAT+AGG - chr4.3:43280148-43280167 None:intergenic 25.0%
AAGTATGGATTTAATGGAGA+TGG + chr4.3:43280314-43280333 MS.gene007708:CDS 30.0%
CTCCAAAAAACCCTATTAAT+GGG + chr4.3:43280134-43280153 MS.gene007708:CDS 30.0%
GTTGCAAAAGATGTGAAAAA+AGG + chr4.3:43280182-43280201 MS.gene007708:CDS 30.0%
TAACAAACCCAATATTTGTG+AGG + chr4.3:43280270-43280289 MS.gene007708:CDS 30.0%
! GCTGAAAAGTATGGATTTAA+TGG + chr4.3:43280308-43280327 MS.gene007708:CDS 30.0%
!! ACATTTTGTTGTGATTGCTA+AGG + chr4.3:43280205-43280224 MS.gene007708:CDS 30.0%
!!! TTCCCATTAATAGGGTTTTT+TGG - chr4.3:43280139-43280158 None:intergenic 30.0%
CCAATAGCCTCACAAATATT+GGG - chr4.3:43280280-43280299 None:intergenic 35.0%
GCTCCAAAAAACCCTATTAA+TGG + chr4.3:43280133-43280152 MS.gene007708:CDS 35.0%
TCCAATAGCCTCACAAATAT+TGG - chr4.3:43280281-43280300 None:intergenic 35.0%
TGAAATTCATTAGGTCGACA+AGG - chr4.3:43280353-43280372 None:intergenic 35.0%
!! GGGTTTGTTAAACAACTCAA+TGG - chr4.3:43280260-43280279 None:intergenic 35.0%
AATATCCACTAGGTCGTCTA+TGG - chr4.3:43280408-43280427 None:intergenic 40.0%
CCCAATATTTGTGAGGCTAT+TGG + chr4.3:43280277-43280296 MS.gene007708:CDS 40.0%
GAACAAGCAGCTGAAAAGTA+TGG + chr4.3:43280299-43280318 MS.gene007708:CDS 40.0%
TGAAGCCATAGACGACCTAG+TGG + chr4.3:43280400-43280419 MS.gene007708:CDS 50.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 43280083 43280436 43280083 ID=MS.gene007708
chr4.3 mRNA 43280083 43280436 43280083 ID=MS.gene007708.t1;Parent=MS.gene007708
chr4.3 exon 43280083 43280436 43280083 ID=MS.gene007708.t1.exon1;Parent=MS.gene007708.t1
chr4.3 CDS 43280083 43280436 43280083 ID=cds.MS.gene007708.t1;Parent=MS.gene007708.t1
Gene Sequence

>MS.gene007708

ATGGCTGTTGTAGGTGGAATTTTGAAGCTCAAGAATAATGTCTTCAAAAAGCTCCAAAAAACCCTATTAATGGGAAGAAATGATAATAAATCAAGGTATGTTGCAAAAGATGTGAAAAAAGGACATTTTGTTGTGATTGCTAAGGATGAAGATGAAGCAAAGAGATTTGTTGTGCCATTGAGTTGTTTAACAAACCCAATATTTGTGAGGCTATTGGAACAAGCAGCTGAAAAGTATGGATTTAATGGAGATGGTGCAATTACTGTTCCTTGTCGACCTAATGAATTTCAGATGATATTGGAGCAGAAAATGCAAGATGAAGCCATAGACGACCTAGTGGATATTTCAAGTTAA
Protein sequence

>MS.gene007708.t1

MAVVGGILKLKNNVFKKLQKTLLMGRNDNKSRYVAKDVKKGHFVVIAKDEDEAKRFVVPLSCLTNPIFVRLLEQAAEKYGFNGDGAITVPCRPNEFQMILEQKMQDEAIDDLVDISS