AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene79443


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene79443.t1 MTR_7g113050 90.566 159 15 0 1 159 161 319 4.63e-106 306
MS.gene79443.t1 MTR_7g113030 89.937 159 16 0 1 159 161 319 5.54e-105 303
MS.gene79443.t1 MTR_7g112615 89.937 159 16 0 1 159 161 319 5.94e-104 300
MS.gene79443.t1 MTR_7g112620 88.679 159 18 0 1 159 161 319 2.01e-102 296
MS.gene79443.t1 MTR_7g113020 86.792 159 21 0 1 159 161 319 1.61e-100 291
MS.gene79443.t1 MTR_4g005160 70.440 159 46 1 2 159 164 322 5.82e-81 242
MS.gene79443.t1 MTR_7g112960 66.460 161 50 2 1 159 161 319 4.26e-72 219
MS.gene79443.t1 MTR_7g112963 67.081 161 49 2 1 159 161 319 1.35e-70 216
MS.gene79443.t1 MTR_7g112970 66.038 159 51 2 1 159 161 316 2.43e-70 215
MS.gene79443.t1 MTR_7g112910 63.750 160 25 3 1 159 68 195 9.09e-61 186
MS.gene79443.t1 MTR_7g108825 58.228 158 65 1 2 159 161 317 1.49e-59 187
MS.gene79443.t1 MTR_4g120240 55.975 159 69 1 1 159 198 355 5.29e-58 184
MS.gene79443.t1 MTR_7g112615 87.179 78 10 0 1 78 161 238 3.91e-45 148
MS.gene79443.t1 MTR_7g113050 87.179 78 10 0 1 78 161 238 5.42e-45 147
MS.gene79443.t1 MTR_7g113010 60.656 122 44 2 2 121 162 281 1.16e-43 152
MS.gene79443.t1 MTR_8g076680 41.772 158 89 2 2 159 163 317 2.06e-33 120
MS.gene79443.t1 MTR_7g108825 51.948 77 36 1 2 78 161 236 7.72e-18 77.8
MS.gene79443.t1 MTR_2g090240 36.585 123 70 4 37 158 195 310 1.13e-17 78.2
MS.gene79443.t1 MTR_2g090245 31.875 160 99 5 2 158 158 310 1.43e-16 75.1
MS.gene79443.t1 MTR_4g089060 36.066 122 70 4 38 158 195 309 9.33e-14 67.4
MS.gene79443.t1 MTR_4g089060 36.066 122 70 4 38 158 222 336 1.24e-13 67.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene79443.t1 AT3G05600 50.932 161 77 2 1 159 164 324 1.26e-54 175
MS.gene79443.t1 AT4G02340 52.830 159 73 2 1 159 160 316 5.28e-53 171
MS.gene79443.t1 AT4G15960 49.057 159 80 1 1 159 217 374 2.13e-47 157
MS.gene79443.t1 AT2G26740 57.862 159 66 1 1 159 164 321 3.33e-47 155
MS.gene79443.t1 AT2G26750 55.975 159 69 1 1 159 163 320 2.25e-45 151
MS.gene79443.t1 AT4G15955 52.500 120 57 0 40 159 185 304 1.47e-38 133
MS.gene79443.t1 AT3G51000 39.521 167 82 4 2 159 163 319 3.02e-32 117
MS.gene79443.t1 AT3G05600 46.250 80 41 2 1 78 164 243 6.90e-17 75.1

Find 43 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACTCTCCCTTGGGAAATAT+TGG 0.280214 3.1:+15576935 None:intergenic
GCCCTCACAGCTCGGAAAAC+TGG 0.342370 3.1:-15576962 MS.gene79443:CDS
ATATTTCCCAAGGGAGAGTA+TGG 0.351665 3.1:-15576932 MS.gene79443:CDS
GTCTCCAAATTTGAGAAAAC+AGG 0.360081 3.1:-15576839 MS.gene79443:CDS
GACAATCACTTCTTCCAGAT+TGG 0.360761 3.1:+15576411 None:intergenic
CCCAAGGGAGAGTATGGAAC+TGG 0.372941 3.1:-15576926 MS.gene79443:CDS
GGTAAGGTGTCAGGAGTATC+CGG 0.384128 3.1:+15576896 None:intergenic
AGCCAAGAGGGTAAGGTGTC+AGG 0.390169 3.1:+15576887 None:intergenic
TTTGAGAAAACAGGCTTCAC+TGG 0.397561 3.1:-15576830 MS.gene79443:CDS
GAAGAAGTGATTGTCCAAAA+AGG 0.401350 3.1:-15576403 MS.gene79443:CDS
CTCCTGACACCTTACCCTCT+TGG 0.407073 3.1:-15576889 MS.gene79443:CDS
TTACTTGTATTGCAGAAATT+GGG 0.423076 3.1:-15576566 MS.gene79443:intron
GTGCCTGTGAAATTCATTAC+AGG 0.432209 3.1:-15576508 MS.gene79443:CDS
CAAGGAAGATGTGCCCAATC+TGG 0.434486 3.1:-15576425 MS.gene79443:CDS
ACAATCACTTCTTCCAGATT+GGG 0.454843 3.1:+15576412 None:intergenic
CCCAGTTCCATACTCTCCCT+TGG 0.465033 3.1:+15576925 None:intergenic
ATACACCTCACTAAACTTGA+AGG 0.465604 3.1:-15576470 MS.gene79443:CDS
TTCTGTAAGCCAAGAGGGTA+AGG 0.471828 3.1:+15576880 None:intergenic
CCAGTTCCATACTCTCCCTT+GGG 0.505497 3.1:+15576926 None:intergenic
AGGCAAAATGGAAGCTGAGA+TGG 0.540634 3.1:-15577017 None:intergenic
TCTCCCTTGGGAAATATTGG+AGG 0.546141 3.1:+15576938 None:intergenic
GAGCTGATGGCACCATGGAA+TGG 0.569405 3.1:-15576544 MS.gene79443:CDS
GAAGGAATATATCCATGGTG+GGG 0.572924 3.1:-15576452 MS.gene79443:CDS
TGAAGGAATATATCCATGGT+GGG 0.577926 3.1:-15576453 MS.gene79443:CDS
TCATCTTCTGTAAGCCAAGA+GGG 0.578236 3.1:+15576875 None:intergenic
TCACCTGTAATGAATTTCAC+AGG 0.581259 3.1:+15576505 None:intergenic
TGGTCCTCCAATATTTCCCA+AGG 0.588717 3.1:-15576942 MS.gene79443:CDS
AAGGAATATATCCATGGTGG+GGG 0.588801 3.1:-15576451 MS.gene79443:CDS
GAAGCTGAGATGGCTGAAGT+TGG 0.590883 3.1:-15577007 MS.gene79443:CDS
ATGGAATGGAGTGAAAATCA+AGG 0.596236 3.1:-15576530 MS.gene79443:CDS
GTATGGAACTGGGTTCGACC+CGG 0.604103 3.1:-15576915 MS.gene79443:CDS
GAGAAAACAGGCTTCACTGG+AGG 0.606396 3.1:-15576827 MS.gene79443:CDS
AACTTGAAGGAATATATCCA+TGG 0.609632 3.1:-15576457 MS.gene79443:CDS
CCAAGGGAGAGTATGGAACT+GGG 0.609678 3.1:-15576925 MS.gene79443:CDS
TTGCAGAAATTGGGAGCTGA+TGG 0.610067 3.1:-15576557 MS.gene79443:intron
ATTTGGAGACATAATAAGCA+AGG 0.610704 3.1:+15576852 None:intergenic
GTAAGGTGTCAGGAGTATCC+GGG 0.618284 3.1:+15576897 None:intergenic
TTGAAGGAATATATCCATGG+TGG 0.621968 3.1:-15576454 MS.gene79443:CDS
CAACAATCAAGAAGCAGCAG+AGG 0.622672 3.1:-15576368 MS.gene79443:CDS
ATATTCCTTCAAGTTTAGTG+AGG 0.634199 3.1:+15576465 None:intergenic
ATTGGGAGCTGATGGCACCA+TGG 0.649732 3.1:-15576549 MS.gene79443:CDS
GTCATCTTCTGTAAGCCAAG+AGG 0.661237 3.1:+15576874 None:intergenic
GGTCCTCCAATATTTCCCAA+GGG 0.706108 3.1:-15576941 MS.gene79443:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTATTGTCAACATATATTTA+TGG + chr3.1:15576600-15576619 None:intergenic 20.0%
!!! TATATGTTGACAATACTTTT+TGG - chr3.1:15576604-15576623 MS.gene79443:intron 20.0%
! AATATAACATGTATACGTGT+CGG + chr3.1:15576718-15576737 None:intergenic 25.0%
! ATTACTTGTATTGCAGAAAT+TGG - chr3.1:15576770-15576789 MS.gene79443:intron 25.0%
! TTACTTGTATTGCAGAAATT+GGG - chr3.1:15576771-15576790 MS.gene79443:intron 25.0%
AACTTGAAGGAATATATCCA+TGG - chr3.1:15576880-15576899 MS.gene79443:CDS 30.0%
ATTTGGAGACATAATAAGCA+AGG + chr3.1:15576488-15576507 None:intergenic 30.0%
! ATATTCCTTCAAGTTTAGTG+AGG + chr3.1:15576875-15576894 None:intergenic 30.0%
ACAATCACTTCTTCCAGATT+GGG + chr3.1:15576928-15576947 None:intergenic 35.0%
ATACACCTCACTAAACTTGA+AGG - chr3.1:15576867-15576886 MS.gene79443:CDS 35.0%
ATGGAATGGAGTGAAAATCA+AGG - chr3.1:15576807-15576826 MS.gene79443:CDS 35.0%
GAAGAAGTGATTGTCCAAAA+AGG - chr3.1:15576934-15576953 MS.gene79443:CDS 35.0%
GTCTCCAAATTTGAGAAAAC+AGG - chr3.1:15576498-15576517 MS.gene79443:CDS 35.0%
TATTTATGGAAAACAACCCG+AGG + chr3.1:15576586-15576605 None:intergenic 35.0%
TCACCTGTAATGAATTTCAC+AGG + chr3.1:15576835-15576854 None:intergenic 35.0%
TGAAGGAATATATCCATGGT+GGG - chr3.1:15576884-15576903 MS.gene79443:CDS 35.0%
TTGAAGGAATATATCCATGG+TGG - chr3.1:15576883-15576902 MS.gene79443:CDS 35.0%
! GAAGCCTGTTTTCTCAAATT+TGG + chr3.1:15576505-15576524 None:intergenic 35.0%
! TTGATTTTCACTCCATTCCA+TGG + chr3.1:15576808-15576827 None:intergenic 35.0%
! TTTTGTTCTTTGTGCTACCT+CGG - chr3.1:15576566-15576585 MS.gene79443:intron 35.0%
AAGGAATATATCCATGGTGG+GGG - chr3.1:15576886-15576905 MS.gene79443:CDS 40.0%
AGTGATTGTCCAAAAAGGAG+TGG - chr3.1:15576939-15576958 MS.gene79443:CDS 40.0%
ATATTTCCCAAGGGAGAGTA+TGG - chr3.1:15576405-15576424 MS.gene79443:CDS 40.0%
GAAGGAATATATCCATGGTG+GGG - chr3.1:15576885-15576904 MS.gene79443:CDS 40.0%
GACAATCACTTCTTCCAGAT+TGG + chr3.1:15576929-15576948 None:intergenic 40.0%
GTGCCTGTGAAATTCATTAC+AGG - chr3.1:15576829-15576848 MS.gene79443:CDS 40.0%
TAAAAAATGCCCTCACAGCT+CGG - chr3.1:15576367-15576386 MS.gene79443:CDS 40.0%
TACTCTCCCTTGGGAAATAT+TGG + chr3.1:15576405-15576424 None:intergenic 40.0%
TCATCTTCTGTAAGCCAAGA+GGG + chr3.1:15576465-15576484 None:intergenic 40.0%
TTTGAGAAAACAGGCTTCAC+TGG - chr3.1:15576507-15576526 MS.gene79443:CDS 40.0%
TTTGTTCTTTGTGCTACCTC+GGG - chr3.1:15576567-15576586 MS.gene79443:intron 40.0%
CAACAATCAAGAAGCAGCAG+AGG - chr3.1:15576969-15576988 MS.gene79443:CDS 45.0%
GGTCCTCCAATATTTCCCAA+GGG - chr3.1:15576396-15576415 MS.gene79443:CDS 45.0%
GTCATCTTCTGTAAGCCAAG+AGG + chr3.1:15576466-15576485 None:intergenic 45.0%
TCTCCCTTGGGAAATATTGG+AGG + chr3.1:15576402-15576421 None:intergenic 45.0%
TGGTCCTCCAATATTTCCCA+AGG - chr3.1:15576395-15576414 MS.gene79443:CDS 45.0%
TTCTGTAAGCCAAGAGGGTA+AGG + chr3.1:15576460-15576479 None:intergenic 45.0%
TTGCAGAAATTGGGAGCTGA+TGG - chr3.1:15576780-15576799 MS.gene79443:intron 45.0%
CAAGGAAGATGTGCCCAATC+TGG - chr3.1:15576912-15576931 MS.gene79443:CDS 50.0%
CCAGTTCCATACTCTCCCTT+GGG + chr3.1:15576414-15576433 None:intergenic 50.0%
GAAGCTGAGATGGCTGAAGT+TGG - chr3.1:15576330-15576349 MS.gene79443:CDS 50.0%
GAGAAAACAGGCTTCACTGG+AGG - chr3.1:15576510-15576529 MS.gene79443:CDS 50.0%
! ACCAGTTTTCCGAGCTGTGA+GGG + chr3.1:15576379-15576398 None:intergenic 50.0%
! CCAAGGGAGAGTATGGAACT+GGG - chr3.1:15576412-15576431 MS.gene79443:CDS 50.0%
! TATCCATGGTGGGGGATTCA+AGG - chr3.1:15576894-15576913 MS.gene79443:CDS 50.0%
! TGTAGTGCGCCACTCCTTTT+TGG + chr3.1:15576951-15576970 None:intergenic 50.0%
!! GGTAAGGTGTCAGGAGTATC+CGG + chr3.1:15576444-15576463 None:intergenic 50.0%
!! GTAAGGTGTCAGGAGTATCC+GGG + chr3.1:15576443-15576462 None:intergenic 50.0%
ATTGGGAGCTGATGGCACCA+TGG - chr3.1:15576788-15576807 MS.gene79443:intron 55.0%
CCCAGTTCCATACTCTCCCT+TGG + chr3.1:15576415-15576434 None:intergenic 55.0%
CTCCTGACACCTTACCCTCT+TGG - chr3.1:15576448-15576467 MS.gene79443:CDS 55.0%
CTTCCTTGAATCCCCCACCA+TGG + chr3.1:15576900-15576919 None:intergenic 55.0%
GAGCTGATGGCACCATGGAA+TGG - chr3.1:15576793-15576812 MS.gene79443:intron 55.0%
GTATGGAACTGGGTTCGACC+CGG - chr3.1:15576422-15576441 MS.gene79443:CDS 55.0%
! AGCCAAGAGGGTAAGGTGTC+AGG + chr3.1:15576453-15576472 None:intergenic 55.0%
! CCCAAGGGAGAGTATGGAAC+TGG - chr3.1:15576411-15576430 MS.gene79443:CDS 55.0%
! GACCAGTTTTCCGAGCTGTG+AGG + chr3.1:15576380-15576399 None:intergenic 55.0%
GCCCTCACAGCTCGGAAAAC+TGG - chr3.1:15576375-15576394 MS.gene79443:CDS 60.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 15576327 15577032 15576327 ID=MS.gene79443
chr3.1 mRNA 15576327 15577032 15576327 ID=MS.gene79443.t1;Parent=MS.gene79443
chr3.1 exon 15576800 15577032 15576800 ID=MS.gene79443.t1.exon1;Parent=MS.gene79443.t1
chr3.1 CDS 15576800 15577032 15576800 ID=cds.MS.gene79443.t1;Parent=MS.gene79443.t1
chr3.1 exon 15576327 15576573 15576327 ID=MS.gene79443.t1.exon2;Parent=MS.gene79443.t1
chr3.1 CDS 15576327 15576573 15576327 ID=cds.MS.gene79443.t1;Parent=MS.gene79443.t1
Gene Sequence

>MS.gene79443

ATGGAAGCTGAGATGGCTGAAGTTGGCACTGCATATGTAATAAAAAATGCCCTCACAGCTCGGAAAACTGGTCCTCCAATATTTCCCAAGGGAGAGTATGGAACTGGGTTCGACCCGGATACTCCTGACACCTTACCCTCTTGGCTTACAGAAGATGACCTTGCTTATTATGTCTCCAAATTTGAGAAAACAGGCTTCACTGGAGGATTGAACTACTATAGAAACTTGAACTTGTAATCTTTTGTTCTTTGTGCTACCTCGGGTTGTTTTCCATAAATATATGTTGACAATACTTTTTGGTAAAATGTTTGAACAACATGACAAATAATCTATGCAGTATTGACATTTCAGATTGAAGACGTGTCTGATGTTCGATACGTGTTGATATCCGACACGTATACATGTTATATTCAATCACTTCGAGTTCTAATGAAAGATGCGTTATTACTTGTATTGCAGAAATTGGGAGCTGATGGCACCATGGAATGGAGTGAAAATCAAGGTGCCTGTGAAATTCATTACAGGTGAGTTAGACAGTGTATACACCTCACTAAACTTGAAGGAATATATCCATGGTGGGGGATTCAAGGAAGATGTGCCCAATCTGGAAGAAGTGATTGTCCAAAAAGGAGTGGCGCACTACAACAATCAAGAAGCAGCAGAGGAAATTAGTAATCACATTTATGAATTCATCAAAAAGTTCTGA

Protein sequence

>MS.gene79443.t1

MEAEMAEVGTAYVIKNALTARKTGPPIFPKGEYGTGFDPDTPDTLPSWLTEDDLAYYVSKFEKTGFTGGLNYYRNLNLNWELMAPWNGVKIKVPVKFITGELDSVYTSLNLKEYIHGGGFKEDVPNLEEVIVQKGVAHYNNQEAAEEISNHIYEFIKKF