AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene007709

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene007709.t1 MTR_4g057800 83.088 136 21 1 1 134 1 136 5.22e-82 237
MS.gene007709.t1 MTR_4g057810 86.111 108 15 0 1 108 1 108 3.56e-66 196
MS.gene007709.t1 MTR_2g095430 55.238 105 41 2 5 107 16 116 5.50e-36 120
MS.gene007709.t1 MTR_1g063300 52.778 72 34 0 29 100 30 101 3.24e-20 79.7
MS.gene007709.t1 MTR_1g063290 51.389 72 35 0 29 100 30 101 3.89e-20 79.7
MS.gene007709.t1 MTR_1g063280 54.545 66 30 0 35 100 39 104 1.62e-18 75.9
MS.gene007709.t1 MTR_1g063260 54.545 66 30 0 35 100 38 103 2.61e-18 75.1
MS.gene007709.t1 MTR_1g063310 42.708 96 52 2 16 111 7 99 2.69e-18 74.7
MS.gene007709.t1 MTR_1g063340 45.333 75 41 0 26 100 20 94 6.98e-18 73.6
MS.gene007709.t1 MTR_1g063330 45.333 75 41 0 26 100 20 94 1.61e-17 72.8
MS.gene007709.t1 MTR_7g101920 41.096 73 43 0 33 105 30 102 1.08e-15 68.6
MS.gene007709.t1 MTR_7g101890 42.029 69 40 0 38 106 52 120 1.78e-14 65.5
MS.gene007709.t1 MTR_8g076040 43.939 66 35 1 26 91 29 92 8.51e-13 60.8
MS.gene007709.t1 MTR_5g021820 42.424 66 36 1 26 91 28 91 1.16e-12 60.5
MS.gene007709.t1 MTR_3g117610 50.000 56 26 1 37 92 44 97 1.72e-12 60.1
MS.gene007709.t1 MTR_4g072190 50.000 56 26 1 37 92 35 88 3.21e-12 59.3
MS.gene007709.t1 MTR_7g118010 34.722 72 47 0 28 99 13 84 9.44e-12 58.2
MS.gene007709.t1 MTR_3g113310 47.273 55 27 1 37 91 41 93 1.97e-11 57.4
MS.gene007709.t1 MTR_3g092220 30.137 73 51 0 27 99 22 94 2.52e-11 57.4
MS.gene007709.t1 MTR_4g072910 35.632 87 46 3 6 91 10 87 3.24e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene007709.t1 AT2G28085 44.444 108 53 3 4 104 16 123 5.93e-23 87.4
MS.gene007709.t1 AT3G09870 46.875 64 34 0 37 100 44 107 1.56e-14 65.5
MS.gene007709.t1 AT2G21220 52.727 55 24 1 37 91 39 91 6.59e-13 61.2
MS.gene007709.t1 AT5G53590 40.260 77 41 2 37 110 45 119 1.99e-12 60.8
MS.gene007709.t1 AT4G34760 50.909 55 25 1 37 91 42 94 8.01e-12 58.5
MS.gene007709.t1 AT4G34780 47.368 57 28 2 37 91 27 83 1.74e-11 57.4
MS.gene007709.t1 AT3G61900 40.323 62 36 1 31 91 23 84 4.18e-11 57.4
MS.gene007709.t1 AT4G34800 44.118 68 36 2 27 92 10 77 6.09e-11 55.8

Find 18 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAACATTTCTTCCCATTAAT+AGG 0.197143 4.3:-43287090 None:intergenic
TCCAATAGACTCACAAATAT+TGG 0.200752 4.3:-43287223 None:intergenic
AACATTTCTTCCCATTAATA+GGG 0.284308 4.3:-43287089 None:intergenic
TCCAATATTTGTGAGTCTAT+TGG 0.286103 4.3:+43287222 MS.gene007709:CDS
TGCGGCACAAGATGTGAAAA+AGG 0.332268 4.3:+43287126 MS.gene007709:CDS
AATATCCACTAGGTCGTCTT+TGG 0.342603 4.3:-43287387 None:intergenic
TAATATCATCTGAAGTTCAT+TGG 0.389495 4.3:-43287305 None:intergenic
GAAATCAAAATGGTTGTTGT+AGG 0.433297 4.3:+43287019 None:intergenic
AATATCATCTGAAGTTCATT+GGG 0.472392 4.3:-43287304 None:intergenic
GGATTTGTTAAACAACTCAA+TGG 0.477349 4.3:-43287202 None:intergenic
ATCAAAATGGTTGTTGTAGG+TGG 0.492707 4.3:+43287022 None:intergenic
GAAGAAATGTTCATAAATCA+AGG 0.506031 4.3:+43287101 MS.gene007709:CDS
GATATTAGTACAGCAACTGC+AGG 0.576007 4.3:+43287321 MS.gene007709:CDS
GTACAGCAACTGCAGGATGA+AGG 0.578278 4.3:+43287328 MS.gene007709:CDS
TGAAGTTCATTGGGTCGACA+AGG 0.635707 4.3:-43287295 None:intergenic
TTTAAATTGAAATATCCACT+AGG 0.648424 4.3:-43287397 None:intergenic
TGTTCATAAATCAAGGTATG+CGG 0.650933 4.3:+43287108 MS.gene007709:CDS
TGCTACCAAAGACGACCTAG+TGG 0.657683 4.3:+43287382 MS.gene007709:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTAAATTGAAATATCCACT+AGG - chr4.3:43287400-43287419 None:intergenic 20.0%
! AACATTTCTTCCCATTAATA+GGG - chr4.3:43287092-43287111 None:intergenic 25.0%
! GAAGAAATGTTCATAAATCA+AGG + chr4.3:43287101-43287120 MS.gene007709:CDS 25.0%
! GCTGAAAAATATGGATTTAA+TGG + chr4.3:43287253-43287272 MS.gene007709:CDS 25.0%
!! AATATCATCTGAAGTTCATT+GGG - chr4.3:43287307-43287326 None:intergenic 25.0%
!! TAATATCATCTGAAGTTCAT+TGG - chr4.3:43287308-43287327 None:intergenic 25.0%
CTCCAAAAAACCCTATTAAT+GGG + chr4.3:43287079-43287098 MS.gene007709:CDS 30.0%
GAACATTTCTTCCCATTAAT+AGG - chr4.3:43287093-43287112 None:intergenic 30.0%
TCCAATAGACTCACAAATAT+TGG - chr4.3:43287226-43287245 None:intergenic 30.0%
TCCAATATTTGTGAGTCTAT+TGG + chr4.3:43287222-43287241 MS.gene007709:CDS 30.0%
TGTTCATAAATCAAGGTATG+CGG + chr4.3:43287108-43287127 MS.gene007709:CDS 30.0%
!! GGATTTGTTAAACAACTCAA+TGG - chr4.3:43287205-43287224 None:intergenic 30.0%
!!! TTCCCATTAATAGGGTTTTT+TGG - chr4.3:43287084-43287103 None:intergenic 30.0%
GAAGAAGCAGCTGAAAAATA+TGG + chr4.3:43287244-43287263 MS.gene007709:CDS 35.0%
GCTCCAAAAAACCCTATTAA+TGG + chr4.3:43287078-43287097 MS.gene007709:CDS 35.0%
! GAAAAAGGGACATTTTGTTG+TGG + chr4.3:43287141-43287160 MS.gene007709:CDS 35.0%
!! ACATTTTGTTGTGGTTGCTA+AGG + chr4.3:43287150-43287169 MS.gene007709:CDS 35.0%
AATATCCACTAGGTCGTCTT+TGG - chr4.3:43287390-43287409 None:intergenic 40.0%
GATATTAGTACAGCAACTGC+AGG + chr4.3:43287321-43287340 MS.gene007709:CDS 40.0%
GCGGCACAAGATGTGAAAAA+GGG + chr4.3:43287127-43287146 MS.gene007709:CDS 45.0%
TGAAGTTCATTGGGTCGACA+AGG - chr4.3:43287298-43287317 None:intergenic 45.0%
TGCGGCACAAGATGTGAAAA+AGG + chr4.3:43287126-43287145 MS.gene007709:CDS 45.0%
GTACAGCAACTGCAGGATGA+AGG + chr4.3:43287328-43287347 MS.gene007709:CDS 50.0%
TGCTACCAAAGACGACCTAG+TGG + chr4.3:43287382-43287401 MS.gene007709:CDS 50.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 43287028 43287444 43287028 ID=MS.gene007709
chr4.3 mRNA 43287028 43287444 43287028 ID=MS.gene007709.t1;Parent=MS.gene007709
chr4.3 exon 43287028 43287444 43287028 ID=MS.gene007709.t1.exon1;Parent=MS.gene007709.t1
chr4.3 CDS 43287028 43287444 43287028 ID=cds.MS.gene007709.t1;Parent=MS.gene007709.t1
Gene Sequence

>MS.gene007709

ATGGTTGTTGTAGGTGGAATTTTGAAGCTCAAGAATAATATCTTCAAAAAGCTCCAAAAAACCCTATTAATGGGAAGAAATGTTCATAAATCAAGGTATGCGGCACAAGATGTGAAAAAGGGACATTTTGTTGTGGTTGCTAAGGATGAAGATGAAGCAAAGAGATTTATTGTGCCATTGAGTTGTTTAACAAATCCAATATTTGTGAGTCTATTGGAAGAAGCAGCTGAAAAATATGGATTTAATGGAGATAGTGCACTAACTGTTCCTTGTCGACCCAATGAACTTCAGATGATATTAGTACAGCAACTGCAGGATGAAGGAACTTATTGCTCTGATCAAGTCATGTTTAAATGCTACCAAAGACGACCTAGTGGATATTTCAATTTAAAGCATATTACATCTAGAGATTATTAG
Protein sequence

>MS.gene007709.t1

MVVVGGILKLKNNIFKKLQKTLLMGRNVHKSRYAAQDVKKGHFVVVAKDEDEAKRFIVPLSCLTNPIFVSLLEEAAEKYGFNGDSALTVPCRPNELQMILVQQLQDEGTYCSDQVMFKCYQRRPSGYFNLKHITSRDY