AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050091

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050091.t1 MTR_4g057810 86.957 115 15 0 1 115 1 115 8.76e-73 212
MS.gene050091.t1 MTR_4g057800 82.727 110 17 1 1 108 1 110 5.92e-63 188
MS.gene050091.t1 MTR_2g095430 59.048 105 37 2 5 107 16 116 8.24e-40 129
MS.gene050091.t1 MTR_1g063300 43.956 91 51 0 13 103 14 104 8.91e-22 83.2
MS.gene050091.t1 MTR_1g063290 42.857 91 52 0 13 103 14 104 1.22e-21 82.8
MS.gene050091.t1 MTR_1g063280 51.429 70 34 0 34 103 38 107 6.53e-20 78.6
MS.gene050091.t1 MTR_1g063340 44.737 76 42 0 26 101 20 95 1.17e-19 77.4
MS.gene050091.t1 MTR_1g063330 43.421 76 43 0 26 101 20 95 5.49e-19 75.9
MS.gene050091.t1 MTR_1g063260 48.571 70 36 0 34 103 37 106 7.36e-19 75.9
MS.gene050091.t1 MTR_7g101890 43.038 79 45 0 28 106 42 120 8.28e-19 75.9
MS.gene050091.t1 MTR_7g101920 44.595 74 41 0 33 106 30 103 2.42e-18 74.7
MS.gene050091.t1 MTR_1g063310 40.698 86 48 1 16 101 7 89 2.44e-17 71.6
MS.gene050091.t1 MTR_8g076040 45.455 66 34 1 26 91 29 92 1.86e-14 64.3
MS.gene050091.t1 MTR_4g072190 39.773 88 45 3 11 97 13 93 1.23e-13 62.0
MS.gene050091.t1 MTR_3g092220 39.062 64 39 0 36 99 31 94 3.37e-13 61.2
MS.gene050091.t1 MTR_3g117610 50.000 56 26 1 37 92 44 97 3.99e-13 61.2
MS.gene050091.t1 MTR_7g118010 40.625 64 38 0 36 99 21 84 6.07e-13 60.5
MS.gene050091.t1 MTR_4g072910 35.870 92 49 3 6 96 10 92 7.97e-13 60.1
MS.gene050091.t1 MTR_8g026730 42.188 64 37 0 36 99 25 88 1.14e-12 59.7
MS.gene050091.t1 MTR_5g021820 44.828 58 30 1 34 91 36 91 1.16e-12 59.7
MS.gene050091.t1 MTR_3g113310 45.902 61 31 1 37 97 41 99 1.22e-12 59.7
MS.gene050091.t1 MTR_4g072570 36.905 84 50 2 17 99 4 85 1.89e-12 58.9
MS.gene050091.t1 MTR_4g072160 42.857 84 44 2 17 100 18 97 1.99e-12 60.1
MS.gene050091.t1 MTR_8g461210 38.636 88 49 3 17 101 11 96 6.08e-12 58.2
MS.gene050091.t1 MTR_4g072330 41.667 72 39 2 26 96 11 80 9.40e-12 57.0
MS.gene050091.t1 MTR_0388s0020 42.188 64 36 1 37 99 74 137 9.89e-12 58.5
MS.gene050091.t1 MTR_2g043960 37.500 80 42 2 37 110 75 152 1.75e-11 58.2
MS.gene050091.t1 MTR_3g117640 47.541 61 30 2 37 96 33 92 1.80e-11 56.6
MS.gene050091.t1 MTR_4g124750 34.694 98 57 3 5 100 37 129 1.90e-11 57.8
MS.gene050091.t1 MTR_4g072370 40.260 77 43 2 21 96 6 80 1.94e-11 56.2
MS.gene050091.t1 MTR_1g063950 34.021 97 60 2 4 100 16 108 3.63e-11 56.2
MS.gene050091.t1 MTR_4g072560 43.284 67 36 2 37 102 31 96 3.83e-11 55.8
MS.gene050091.t1 MTR_7g101740 44.118 68 36 1 34 101 36 101 4.09e-11 55.8
MS.gene050091.t1 MTR_4g072500 40.909 66 36 2 35 99 22 85 7.88e-11 54.7
MS.gene050091.t1 MTR_4g072530 42.424 66 35 2 35 99 22 85 8.84e-11 54.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050091.t1 AT2G28085 48.148 108 49 3 4 104 16 123 5.41e-26 94.4
MS.gene050091.t1 AT3G09870 49.315 73 37 0 29 101 36 108 2.40e-18 74.7
MS.gene050091.t1 AT3G61900 35.238 105 64 2 16 116 5 109 1.35e-15 68.2
MS.gene050091.t1 AT2G21220 52.727 55 24 1 37 91 39 91 1.78e-13 62.0
MS.gene050091.t1 AT4G34800 45.833 72 37 2 27 96 10 81 3.25e-13 60.8
MS.gene050091.t1 AT5G53590 45.588 68 34 1 37 101 45 112 5.12e-13 61.6
MS.gene050091.t1 AT2G46690 36.585 82 51 1 19 99 5 86 7.23e-13 60.8
MS.gene050091.t1 AT1G75580 43.529 85 41 3 7 91 18 95 1.76e-12 59.3
MS.gene050091.t1 AT4G34810 40.964 83 45 3 27 105 36 118 2.73e-12 59.3
MS.gene050091.t1 AT4G34790 46.667 60 31 1 38 96 39 98 2.76e-12 58.9
MS.gene050091.t1 AT4G34760 46.032 63 32 1 37 99 42 102 3.53e-12 58.5
MS.gene050091.t1 AT5G66260 43.750 64 34 1 38 101 34 95 3.64e-12 58.5
MS.gene050091.t1 AT4G38860 51.786 56 24 2 37 91 39 92 3.88e-12 58.5
MS.gene050091.t1 AT1G19830 41.096 73 41 1 37 109 47 117 4.02e-12 58.5
MS.gene050091.t1 AT2G37030 44.444 63 33 1 34 96 45 105 4.58e-12 58.9
MS.gene050091.t1 AT4G12410 36.585 82 48 2 19 99 60 138 5.26e-12 59.3
MS.gene050091.t1 AT4G34780 45.161 62 32 2 37 96 27 88 1.19e-11 57.4
MS.gene050091.t1 AT5G20810 37.500 88 50 2 30 114 71 156 2.62e-11 57.8
MS.gene050091.t1 AT4G34770 36.585 82 51 1 16 96 13 94 3.19e-11 56.2
MS.gene050091.t1 AT5G20810 37.647 85 48 2 30 111 71 153 4.27e-11 57.4
MS.gene050091.t1 AT3G43120 42.188 64 35 1 37 100 78 139 4.49e-11 57.0

Find 22 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATCATTTCTTCCCATTAAT+AGG 0.172378 4.2:-45398264 None:intergenic
TCTAATAGCCTCACAAATAT+TGG 0.236487 4.2:-45398397 None:intergenic
ATCATTTCTTCCCATTAATA+GGG 0.284308 4.2:-45398263 None:intergenic
GCTGAAAAGTATGGATTTAA+TGG 0.293311 4.2:+45398427 MS.gene050091:CDS
GAACAAGCAGCTGAAAAGTA+TGG 0.330227 4.2:+45398418 MS.gene050091:CDS
AATATCCACTAGGTCGTCTA+TGG 0.384725 4.2:-45398524 None:intergenic
TAATGAATTTCAGATGGTAT+TGG 0.420282 4.2:+45398480 MS.gene050091:CDS
AATACCATCTGAAATTCATT+AGG 0.423714 4.2:-45398478 None:intergenic
GAAATCAAAATGGTTGTTGT+AGG 0.444416 4.2:+45398193 None:intergenic
GGATTTGTTAAACAACTCAA+TGG 0.477349 4.2:-45398376 None:intergenic
ATCAAAATGGTTGTTGTAGG+TGG 0.525233 4.2:+45398196 None:intergenic
TAAATCAAGGTATGTGGCAA+AGG 0.537934 4.2:+45398288 MS.gene050091:CDS
TGATAATAAATCAAGGTATG+TGG 0.539589 4.2:+45398282 MS.gene050091:CDS
GAAGAAATGATAATAAATCA+AGG 0.559372 4.2:+45398275 MS.gene050091:CDS
TAACAAATCCAATATTTGTG+AGG 0.579757 4.2:+45398389 MS.gene050091:CDS
TCGACCTAATGAATTTCAGA+TGG 0.587242 4.2:+45398474 MS.gene050091:CDS
AAGTATGGATTTAATGGAGA+TGG 0.588044 4.2:+45398433 MS.gene050091:CDS
GTGGCAAAGGATGTGAAGAA+AGG 0.590112 4.2:+45398301 MS.gene050091:CDS
TGTGATTGCTAAGGATGAAG+AGG 0.634805 4.2:+45398333 MS.gene050091:CDS
TTTAACTTGAAATATCCACT+AGG 0.647972 4.2:-45398534 None:intergenic
TGAAATTCATTAGGTCGACA+AGG 0.660069 4.2:-45398469 None:intergenic
TGAAGCCATAGACGACCTAG+TGG 0.666615 4.2:+45398519 MS.gene050091:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAGAAATGATAATAAATCA+AGG + chr4.2:45398275-45398294 MS.gene050091:CDS 20.0%
! ATCATTTCTTCCCATTAATA+GGG - chr4.2:45398266-45398285 None:intergenic 25.0%
! TAACAAATCCAATATTTGTG+AGG + chr4.2:45398389-45398408 MS.gene050091:CDS 25.0%
! TAATGAATTTCAGATGGTAT+TGG + chr4.2:45398480-45398499 MS.gene050091:CDS 25.0%
! TATCATTTCTTCCCATTAAT+AGG - chr4.2:45398267-45398286 None:intergenic 25.0%
! TGATAATAAATCAAGGTATG+TGG + chr4.2:45398282-45398301 MS.gene050091:CDS 25.0%
!! AATACCATCTGAAATTCATT+AGG - chr4.2:45398481-45398500 None:intergenic 25.0%
AAGTATGGATTTAATGGAGA+TGG + chr4.2:45398433-45398452 MS.gene050091:CDS 30.0%
CTCCAAAAAACCCTATTAAT+GGG + chr4.2:45398253-45398272 MS.gene050091:CDS 30.0%
TCTAATAGCCTCACAAATAT+TGG - chr4.2:45398400-45398419 None:intergenic 30.0%
! GCTGAAAAGTATGGATTTAA+TGG + chr4.2:45398427-45398446 MS.gene050091:CDS 30.0%
!! ACATTTTGTTGTGATTGCTA+AGG + chr4.2:45398324-45398343 MS.gene050091:CDS 30.0%
!! GGATTTGTTAAACAACTCAA+TGG - chr4.2:45398379-45398398 None:intergenic 30.0%
!!! TTCCCATTAATAGGGTTTTT+TGG - chr4.2:45398258-45398277 None:intergenic 30.0%
GCTCCAAAAAACCCTATTAA+TGG + chr4.2:45398252-45398271 MS.gene050091:CDS 35.0%
TAAATCAAGGTATGTGGCAA+AGG + chr4.2:45398288-45398307 MS.gene050091:CDS 35.0%
TCGACCTAATGAATTTCAGA+TGG + chr4.2:45398474-45398493 MS.gene050091:CDS 35.0%
TGAAATTCATTAGGTCGACA+AGG - chr4.2:45398472-45398491 None:intergenic 35.0%
AATATCCACTAGGTCGTCTA+TGG - chr4.2:45398527-45398546 None:intergenic 40.0%
GAACAAGCAGCTGAAAAGTA+TGG + chr4.2:45398418-45398437 MS.gene050091:CDS 40.0%
TGTGATTGCTAAGGATGAAG+AGG + chr4.2:45398333-45398352 MS.gene050091:CDS 40.0%
GTGGCAAAGGATGTGAAGAA+AGG + chr4.2:45398301-45398320 MS.gene050091:CDS 45.0%
TGAAGCCATAGACGACCTAG+TGG + chr4.2:45398519-45398538 MS.gene050091:CDS 50.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 45398202 45398555 45398202 ID=MS.gene050091
chr4.2 mRNA 45398202 45398555 45398202 ID=MS.gene050091.t1;Parent=MS.gene050091
chr4.2 exon 45398202 45398555 45398202 ID=MS.gene050091.t1.exon1;Parent=MS.gene050091.t1
chr4.2 CDS 45398202 45398555 45398202 ID=cds.MS.gene050091.t1;Parent=MS.gene050091.t1
Gene Sequence

>MS.gene050091

ATGGTTGTTGTAGGTGGAATTTTGAAGCTCAAGAATAATATCTTCAAAAAGCTCCAAAAAACCCTATTAATGGGAAGAAATGATAATAAATCAAGGTATGTGGCAAAGGATGTGAAGAAAGGACATTTTGTTGTGATTGCTAAGGATGAAGAGGAAGCAAAGAGATTTGTTGTGCCATTGAGTTGTTTAACAAATCCAATATTTGTGAGGCTATTAGAACAAGCAGCTGAAAAGTATGGATTTAATGGAGATGGTGCACTAACTGTTCCTTGTCGACCTAATGAATTTCAGATGGTATTGGAGCAGAAAATGCAAGATGAAGCCATAGACGACCTAGTGGATATTTCAAGTTAA
Protein sequence

>MS.gene050091.t1

MVVVGGILKLKNNIFKKLQKTLLMGRNDNKSRYVAKDVKKGHFVVIAKDEEEAKRFVVPLSCLTNPIFVRLLEQAAEKYGFNGDGALTVPCRPNEFQMVLEQKMQDEAIDDLVDISS