AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene74208

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene74208.t1 MTR_1g116010 86.486 111 13 2 9 118 137 246 1.24e-64 196
MS.gene74208.t1 MTR_1g094930 63.934 122 34 2 6 117 113 234 3.80e-43 141
MS.gene74208.t1 MTR_1g094930 63.934 122 34 2 6 117 208 329 3.36e-42 141
MS.gene74208.t1 MTR_2g094600 56.604 106 44 1 4 107 181 286 5.62e-35 122
MS.gene74208.t1 MTR_4g071590 59.783 92 33 1 16 107 194 281 6.92e-34 119
MS.gene74208.t1 MTR_4g471590 59.783 92 33 1 16 107 194 281 6.92e-34 119
MS.gene74208.t1 MTR_4g058910 76.923 65 15 0 37 101 314 378 8.73e-34 121
MS.gene74208.t1 MTR_1g046680 70.000 70 21 0 32 101 167 236 1.31e-32 114
MS.gene74208.t1 MTR_6g032830 74.242 66 17 0 37 102 192 257 1.34e-32 115
MS.gene74208.t1 MTR_8g076340 60.000 90 35 1 12 101 194 282 1.54e-32 115
MS.gene74208.t1 MTR_1g006650 73.846 65 17 0 37 101 234 298 3.78e-32 115
MS.gene74208.t1 MTR_5g021340 56.075 107 41 2 10 112 269 373 5.38e-32 116
MS.gene74208.t1 MTR_3g117380 71.642 67 19 0 35 101 227 293 9.87e-32 114
MS.gene74208.t1 MTR_7g085410 69.565 69 21 0 34 102 185 253 1.09e-31 112
MS.gene74208.t1 MTR_8g013950 63.750 80 29 0 22 101 211 290 1.54e-31 114
MS.gene74208.t1 MTR_5g007600 67.143 70 23 0 32 101 254 323 5.24e-31 112
MS.gene74208.t1 MTR_5g007600 63.768 69 25 0 32 100 152 220 2.31e-28 105
MS.gene74208.t1 MTR_3g109760 73.846 65 17 0 37 101 207 271 9.54e-31 111
MS.gene74208.t1 MTR_7g446110 61.290 62 24 0 37 98 187 248 4.98e-22 87.4
MS.gene74208.t1 MTR_7g445980 62.712 59 21 1 41 98 37 95 1.38e-20 79.7
MS.gene74208.t1 MTR_7g445950 51.515 66 32 0 33 98 116 181 4.39e-19 78.2
MS.gene74208.t1 MTR_7g446070 51.515 66 32 0 33 98 128 193 1.75e-18 77.0
MS.gene74208.t1 MTR_5g020230 46.296 54 29 0 16 69 101 154 2.78e-14 66.6
MS.gene74208.t1 MTR_7g112330 63.415 41 15 0 34 74 19 59 1.98e-13 62.4
MS.gene74208.t1 MTR_8g077510 61.111 36 14 0 34 69 122 157 2.57e-12 61.2
MS.gene74208.t1 MTR_2g059300 77.419 31 7 0 30 60 24 54 6.47e-12 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.gene74208.t1 AT3G54810 79.167 72 15 0 36 107 228 299 8.52e-37 127
MS.gene74208.t1 AT3G54810 79.167 72 15 0 36 107 228 299 8.52e-37 127
MS.gene74208.t1 AT3G24050 60.825 97 32 1 15 111 178 268 3.01e-36 124
MS.gene74208.t1 AT1G08010 63.855 83 30 0 31 113 214 296 4.05e-36 125
MS.gene74208.t1 AT1G08010 63.855 83 30 0 31 113 214 296 4.05e-36 125
MS.gene74208.t1 AT1G08010 63.855 83 30 0 31 113 214 296 4.05e-36 125
MS.gene74208.t1 AT1G08000 73.134 67 18 0 35 101 216 282 1.73e-33 118
MS.gene74208.t1 AT1G08000 73.134 67 18 0 35 101 216 282 1.73e-33 118
MS.gene74208.t1 AT4G34680 62.025 79 30 0 33 111 176 254 3.58e-33 116
MS.gene74208.t1 AT4G34680 62.025 79 30 0 33 111 176 254 3.58e-33 116
MS.gene74208.t1 AT5G66320 55.340 103 44 1 15 115 227 329 7.70e-33 117
MS.gene74208.t1 AT5G66320 55.340 103 44 1 15 115 227 329 7.70e-33 117
MS.gene74208.t1 AT4G36240 50.926 108 52 1 1 107 127 234 8.48e-33 115
MS.gene74208.t1 AT4G32890 70.769 65 19 0 37 101 197 261 1.48e-31 113
MS.gene74208.t1 AT5G25830 72.308 65 18 0 37 101 219 283 2.15e-31 113
MS.gene74208.t1 AT3G51080 66.667 75 23 1 37 111 221 293 6.46e-31 112
MS.gene74208.t1 AT3G60530 62.162 74 28 0 36 109 157 230 7.81e-31 110
MS.gene74208.t1 AT2G45050 65.753 73 21 1 36 104 178 250 2.38e-30 109
MS.gene74208.t1 AT2G28340 67.606 71 20 1 39 109 193 260 6.97e-30 108
MS.gene74208.t1 AT3G45170 55.263 76 34 0 29 104 107 182 6.54e-28 101
MS.gene74208.t1 AT4G36620 58.333 36 15 0 34 69 72 107 3.23e-12 60.8
MS.gene74208.t1 AT3G50870 58.333 36 15 0 34 69 149 184 1.43e-11 60.1
MS.gene74208.t1 AT2G18380 60.000 35 14 0 35 69 90 124 2.03e-11 58.5
MS.gene74208.t1 AT4G26150 57.895 38 16 0 30 67 192 229 3.07e-11 59.3
MS.gene74208.t1 AT5G26930 56.757 37 16 0 36 72 25 61 4.01e-11 56.2
MS.gene74208.t1 AT5G56860 54.762 42 19 0 28 69 221 262 9.15e-11 57.8

Find 36 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAGCAACAGGCCGGTATTC+AGG 0.202243 1.2:-86099192 None:intergenic
AGACACAAGGATAATAATTC+TGG 0.352491 1.2:+86099279 MS.gene74208:CDS
GTCTCATCACTCTCATTTCA+AGG 0.381030 1.2:-86099260 None:intergenic
GAAAATGTTGGGCTAGCAAC+AGG 0.436477 1.2:-86099204 None:intergenic
TAATTCTGGTATTCTCGCCT+TGG 0.441508 1.2:+86099293 MS.gene74208:CDS
TAGCAACAGGCCGGTATTCA+GGG 0.446393 1.2:-86099191 None:intergenic
TCTGCAATGCTTGCGGCGTT+CGG 0.448102 1.2:+86099148 MS.gene74208:CDS
GCGCCTCTTCTTGCTGCTCC+AGG 0.448261 1.2:+86099030 MS.gene74208:CDS
CAATGGAGGTCAGGGCCAGA+GGG 0.460506 1.2:+86099114 MS.gene74208:CDS
TGACCTCCATTGTGGTGTCT+TGG 0.470363 1.2:-86099103 None:intergenic
TGCGGCGTTCGGTACAAGTC+AGG 0.475560 1.2:+86099159 MS.gene74208:CDS
AAGACACCACAATGGAGGTC+AGG 0.476853 1.2:+86099105 MS.gene74208:CDS
ACCAAAGTATTATGATCTCC+TGG 0.478922 1.2:-86099048 None:intergenic
GGACTCTAGAGAAGAGGAAG+TGG 0.484892 1.2:-86098986 None:intergenic
GCCGACTTTGCCCTGAATAC+CGG 0.496140 1.2:+86099181 MS.gene74208:CDS
ACAATGGAGGTCAGGGCCAG+AGG 0.512229 1.2:+86099113 MS.gene74208:CDS
TCCAGGAGATCATAATACTT+TGG 0.514433 1.2:+86099047 MS.gene74208:CDS
GAAGATCCGGAGAAAATGTT+GGG 0.515937 1.2:-86099215 None:intergenic
TGTGAGTTAGAGTGAAGATC+CGG 0.525870 1.2:-86099228 None:intergenic
TGAAGATCCGGAGAAAATGT+TGG 0.538158 1.2:-86099216 None:intergenic
CTCCCTTCACACGTATTCCA+AGG 0.557994 1.2:-86099310 None:intergenic
CTTCTTGGACTCTAGAGAAG+AGG 0.565275 1.2:-86098992 None:intergenic
GACTCTAGAGAAGAGGAAGT+GGG 0.570792 1.2:-86098985 None:intergenic
TCGCCTTGGAATACGTGTGA+AGG 0.571882 1.2:+86099307 MS.gene74208:CDS
TCTGGCCCTGACCTCCATTG+TGG 0.574213 1.2:-86099111 None:intergenic
GCCGGTATTCAGGGCAAAGT+CGG 0.582975 1.2:-86099182 None:intergenic
AGACACCACAATGGAGGTCA+GGG 0.625833 1.2:+86099106 MS.gene74208:CDS
ATGTTGGGCTAGCAACAGGC+CGG 0.635385 1.2:-86099200 None:intergenic
TCTCCTGGAGCAGCAAGAAG+AGG 0.648108 1.2:-86099033 None:intergenic
AAAACACTCTGCAATGCTTG+CGG 0.650171 1.2:+86099141 MS.gene74208:CDS
AATGGAGGTCAGGGCCAGAG+GGG 0.656879 1.2:+86099115 MS.gene74208:CDS
CGACCAAGACACCACAATGG+AGG 0.657049 1.2:+86099100 MS.gene74208:CDS
AGTGGGAGAAATGAGTTGCA+TGG 0.665035 1.2:-86098968 None:intergenic
AGGCGACCAAGACACCACAA+TGG 0.710774 1.2:+86099097 MS.gene74208:CDS
GAAGAAATGCATGCATTGTG+AGG 0.712899 1.2:+86099077 MS.gene74208:CDS
AATGAGAGTGATGAGACACA+AGG 0.721980 1.2:+86099266 MS.gene74208:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CAAGAAGAAAAAGAAAACAA+AGG + chr1.2:86099008-86099027 MS.gene74208:CDS 25.0%
!!! CTTTGTTTTCTTTTTCTTCT+TGG - chr1.2:86099010-86099029 None:intergenic 25.0%
AGACACAAGGATAATAATTC+TGG + chr1.2:86099279-86099298 MS.gene74208:CDS 30.0%
TCCAGGAGATCATAATACTT+TGG + chr1.2:86099047-86099066 MS.gene74208:CDS 35.0%
! ACCAAAGTATTATGATCTCC+TGG - chr1.2:86099051-86099070 None:intergenic 35.0%
AAAACACTCTGCAATGCTTG+CGG + chr1.2:86099141-86099160 MS.gene74208:CDS 40.0%
AATGAGAGTGATGAGACACA+AGG + chr1.2:86099266-86099285 MS.gene74208:CDS 40.0%
GAAGAAATGCATGCATTGTG+AGG + chr1.2:86099077-86099096 MS.gene74208:CDS 40.0%
GAAGATCCGGAGAAAATGTT+GGG - chr1.2:86099218-86099237 None:intergenic 40.0%
GTCTCATCACTCTCATTTCA+AGG - chr1.2:86099263-86099282 None:intergenic 40.0%
TAATTCTGGTATTCTCGCCT+TGG + chr1.2:86099293-86099312 MS.gene74208:CDS 40.0%
TGAAGATCCGGAGAAAATGT+TGG - chr1.2:86099219-86099238 None:intergenic 40.0%
TGTGAGTTAGAGTGAAGATC+CGG - chr1.2:86099231-86099250 None:intergenic 40.0%
!! CAAGCATTGCAGAGTGTTTT+CGG - chr1.2:86099141-86099160 None:intergenic 40.0%
! CTTCTTGGACTCTAGAGAAG+AGG - chr1.2:86098995-86099014 None:intergenic 45.0%
! GACTCTAGAGAAGAGGAAGT+GGG - chr1.2:86098988-86099007 None:intergenic 45.0%
! TGCTAGCCCAACATTTTCTC+CGG + chr1.2:86099209-86099228 MS.gene74208:CDS 45.0%
!! GAAAATGTTGGGCTAGCAAC+AGG - chr1.2:86099207-86099226 None:intergenic 45.0%
AAGACACCACAATGGAGGTC+AGG + chr1.2:86099105-86099124 MS.gene74208:CDS 50.0%
AGACACCACAATGGAGGTCA+GGG + chr1.2:86099106-86099125 MS.gene74208:CDS 50.0%
TAGCAACAGGCCGGTATTCA+GGG - chr1.2:86099194-86099213 None:intergenic 50.0%
TGACCTCCATTGTGGTGTCT+TGG - chr1.2:86099106-86099125 None:intergenic 50.0%
! GGACTCTAGAGAAGAGGAAG+TGG - chr1.2:86098989-86099008 None:intergenic 50.0%
AGGCGACCAAGACACCACAA+TGG + chr1.2:86099097-86099116 MS.gene74208:CDS 55.0%
CGACCAAGACACCACAATGG+AGG + chr1.2:86099100-86099119 MS.gene74208:CDS 55.0%
CTAGCAACAGGCCGGTATTC+AGG - chr1.2:86099195-86099214 None:intergenic 55.0%
GCCGGTATTCAGGGCAAAGT+CGG - chr1.2:86099185-86099204 None:intergenic 55.0%
TCTCCTGGAGCAGCAAGAAG+AGG - chr1.2:86099036-86099055 None:intergenic 55.0%
TCTGCAATGCTTGCGGCGTT+CGG + chr1.2:86099148-86099167 MS.gene74208:CDS 55.0%
! GCCGACTTTGCCCTGAATAC+CGG + chr1.2:86099181-86099200 MS.gene74208:CDS 55.0%
!! ATGTTGGGCTAGCAACAGGC+CGG - chr1.2:86099203-86099222 None:intergenic 55.0%
AATGGAGGTCAGGGCCAGAG+GGG + chr1.2:86099115-86099134 MS.gene74208:CDS 60.0%
ACAATGGAGGTCAGGGCCAG+AGG + chr1.2:86099113-86099132 MS.gene74208:CDS 60.0%
CAATGGAGGTCAGGGCCAGA+GGG + chr1.2:86099114-86099133 MS.gene74208:CDS 60.0%
TCTGGCCCTGACCTCCATTG+TGG - chr1.2:86099114-86099133 None:intergenic 60.0%
TGCGGCGTTCGGTACAAGTC+AGG + chr1.2:86099159-86099178 MS.gene74208:CDS 60.0%
!! CAGAGTGTTTTCGGCCCCTC+TGG - chr1.2:86099132-86099151 None:intergenic 60.0%
GCGCCTCTTCTTGCTGCTCC+AGG + chr1.2:86099030-86099049 MS.gene74208:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 86098970 86099326 86098970 ID=MS.gene74208
chr1.2 mRNA 86098970 86099326 86098970 ID=MS.gene74208.t1;Parent=MS.gene74208
chr1.2 exon 86098970 86099326 86098970 ID=MS.gene74208.t1.exon1;Parent=MS.gene74208.t1
chr1.2 CDS 86098970 86099326 86098970 ID=cds.MS.gene74208.t1;Parent=MS.gene74208.t1
Gene Sequence

>MS.gene74208

ATGCAACTCATTTCTCCCACTTCCTCTTCTCTAGAGTCCAAGAAGAAAAAGAAAACAAAGGCGCCTCTTCTTGCTGCTCCAGGAGATCATAATACTTTGGTACTTGTGAAGAAATGCATGCATTGTGAGGCGACCAAGACACCACAATGGAGGTCAGGGCCAGAGGGGCCGAAAACACTCTGCAATGCTTGCGGCGTTCGGTACAAGTCAGGCCGACTTTGCCCTGAATACCGGCCTGTTGCTAGCCCAACATTTTCTCCGGATCTTCACTCTAACTCACATAAGAAGATCCTTGAAATGAGAGTGATGAGACACAAGGATAATAATTCTGGTATTCTCGCCTTGGAATACGTGTGA
Protein sequence

>MS.gene74208.t1

MQLISPTSSSLESKKKKKTKAPLLAAPGDHNTLVLVKKCMHCEATKTPQWRSGPEGPKTLCNACGVRYKSGRLCPEYRPVASPTFSPDLHSNSHKKILEMRVMRHKDNNSGILALEYV