AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene52693

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene52693.t1 MTR_7g093790 92.857 196 9 1 1 196 1 191 2.31e-132 369
MS.gene52693.t1 MTR_7g093820 78.173 197 39 2 1 196 1 194 5.36e-112 318
MS.gene52693.t1 MTR_7g093850 77.157 197 41 2 1 196 1 194 2.09e-110 313
MS.gene52693.t1 MTR_7g093830 76.963 191 41 2 8 196 4 193 7.42e-108 307
MS.gene52693.t1 MTR_7g093870 55.682 176 71 4 26 196 20 193 7.91e-68 207
MS.gene52693.t1 MTR_4g013350 51.205 166 79 2 32 196 33 197 4.17e-59 184
MS.gene52693.t1 MTR_1g054525 49.457 184 85 4 18 196 12 192 7.21e-57 178
MS.gene52693.t1 MTR_4g013320 51.974 152 72 1 45 196 49 199 4.64e-56 176
MS.gene52693.t1 MTR_4g013335 46.988 166 84 3 32 196 34 196 1.29e-55 175
MS.gene52693.t1 MTR_4g013345 48.193 166 84 2 32 196 32 196 6.44e-55 173
MS.gene52693.t1 MTR_4g013310 48.795 166 81 3 32 196 35 197 1.50e-53 169
MS.gene52693.t1 MTR_4g013330 46.429 168 86 3 32 196 33 199 2.35e-53 169
MS.gene52693.t1 MTR_4g013325 50.685 146 71 1 51 196 55 199 9.48e-53 167
MS.gene52693.t1 MTR_7g070390 46.486 185 95 3 14 196 10 192 1.91e-50 161
MS.gene52693.t1 MTR_4g073950 48.366 153 77 2 45 196 41 192 5.94e-47 152
MS.gene52693.t1 MTR_4g013385 43.646 181 95 5 20 196 13 190 1.27e-46 152
MS.gene52693.t1 MTR_0433s0040 43.646 181 95 5 20 196 13 190 1.27e-46 152
MS.gene52693.t1 MTR_4g013770 42.515 167 93 3 31 196 27 191 6.27e-46 150
MS.gene52693.t1 MTR_3g105640 43.548 186 101 4 13 196 5 188 1.29e-45 149
MS.gene52693.t1 MTR_3g105630 41.361 191 105 4 9 196 3 189 1.27e-44 147
MS.gene52693.t1 MTR_1g056370 40.107 187 99 5 20 195 1 185 7.82e-43 142
MS.gene52693.t1 MTR_5g096120 45.882 170 80 5 33 196 26 189 4.16e-42 140
MS.gene52693.t1 MTR_4g013355 38.372 172 94 2 25 196 20 179 7.40e-40 134
MS.gene52693.t1 MTR_3g034030 40.104 192 106 6 6 196 2 185 1.30e-38 131
MS.gene52693.t1 MTR_4g078885 39.583 192 107 6 6 196 2 185 2.34e-38 130
MS.gene52693.t1 MTR_4g122130 41.722 151 87 1 46 196 31 180 3.55e-31 112
MS.gene52693.t1 MTR_4g122110 40.397 151 89 1 46 196 31 180 1.41e-30 110
MS.gene52693.t1 MTR_4g049550 32.308 195 106 4 1 191 1 173 1.63e-20 84.7
MS.gene52693.t1 MTR_4g049570 35.938 128 81 1 43 170 26 152 3.96e-20 83.6
MS.gene52693.t1 MTR_1g046490 43.617 94 51 2 81 174 120 211 7.61e-15 70.9
MS.gene52693.t1 MTR_1g046800 42.553 94 52 2 81 174 134 225 3.93e-14 68.9
MS.gene52693.t1 MTR_1g046500 42.553 94 52 2 81 174 134 225 5.95e-14 68.6
MS.gene52693.t1 MTR_8g099135 31.008 129 71 5 55 171 38 160 4.41e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene52693.t1 AT5G42500 50.898 167 78 3 29 195 23 185 1.78e-52 166
MS.gene52693.t1 AT5G42510 48.810 168 82 3 28 195 19 182 7.02e-51 162
MS.gene52693.t1 AT1G58170 43.210 162 91 1 35 196 25 185 7.70e-51 162
MS.gene52693.t1 AT1G65870 49.032 155 74 3 43 195 38 189 1.09e-49 159
MS.gene52693.t1 AT1G22900 45.946 185 88 4 11 195 21 193 7.28e-49 157
MS.gene52693.t1 AT3G13650 39.548 177 103 2 20 196 14 186 8.39e-47 152
MS.gene52693.t1 AT1G55210 40.698 172 97 3 26 196 20 187 1.98e-46 151
MS.gene52693.t1 AT1G55210 40.698 172 97 3 26 196 20 187 1.98e-46 151
MS.gene52693.t1 AT5G49040 37.563 197 116 3 1 196 1 191 7.93e-46 150
MS.gene52693.t1 AT4G38700 40.741 189 105 4 13 196 4 190 5.33e-42 140
MS.gene52693.t1 AT2G21110 37.838 185 101 5 20 196 8 186 1.98e-40 136
MS.gene52693.t1 AT3G13662 36.571 175 106 3 10 183 2 172 7.13e-40 134
MS.gene52693.t1 AT2G21100 37.436 195 114 2 1 195 1 187 1.53e-39 134
MS.gene52693.t1 AT2G21100 37.436 195 114 2 1 195 1 187 1.53e-39 134
MS.gene52693.t1 AT3G58090 51.220 123 54 2 73 195 155 271 7.46e-38 132
MS.gene52693.t1 AT5G49030 38.286 175 101 3 1 174 1 169 1.23e-35 132
MS.gene52693.t1 AT3G13660 45.614 114 61 1 83 196 13 125 2.59e-32 113
MS.gene52693.t1 AT4G11210 30.556 144 92 5 29 171 22 158 4.64e-11 59.7
MS.gene52693.t1 AT3G24020 38.298 94 56 2 81 174 127 218 5.57e-11 60.1
MS.gene52693.t1 AT1G64160 29.457 129 83 4 45 169 31 155 6.30e-11 59.3

Find 55 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTATCACTGCGCTTGCTTT+GGG 0.227737 7.2:-15752087 None:intergenic
TACTATCACTGCGCTTGCTT+TGG 0.236778 7.2:-15752088 None:intergenic
ACAATAGGCATTTCTCTAAT+AGG 0.277388 7.2:-15752351 None:intergenic
TTCTCAGAGGGAGAATTTAA+TGG 0.312603 7.2:+15752285 MS.gene52693:CDS
TGGAAGCACACTTAGTATAT+TGG 0.330019 7.2:+15752305 MS.gene52693:CDS
ATGCCTATTGTTGGTGGAAC+TGG 0.330790 7.2:+15752363 MS.gene52693:CDS
TTGAAAATTGTCTTCCATTC+GGG 0.334163 7.2:+15752130 MS.gene52693:CDS
TAATGCTAATTAATTAATAA+TGG 0.335277 7.2:-15752482 None:intergenic
TAGAGTGATGAGTAGAGTTA+TGG 0.353183 7.2:-15751932 None:intergenic
GGGATATGTAGAAGGAAATA+AGG 0.357210 7.2:-15751957 None:intergenic
AAGCTTATCTCCAGCGTTGT+TGG 0.381055 7.2:+15752005 MS.gene52693:CDS
GTTGAAAATTGTCTTCCATT+CGG 0.400576 7.2:+15752129 MS.gene52693:CDS
CTTCTATTTCCACGACGTTA+TGG 0.402399 7.2:+15752059 MS.gene52693:CDS
AGCTTATCTCCAGCGTTGTT+GGG 0.411907 7.2:+15752006 MS.gene52693:CDS
TTGATGATCCGTTGACGATT+GGG 0.420870 7.2:+15752166 MS.gene52693:CDS
TTCAACCTTGCCGTTGGGCT+CGG 0.423251 7.2:-15752112 None:intergenic
ATTGATGATCCGTTGACGAT+TGG 0.429792 7.2:+15752165 MS.gene52693:CDS
ATTAGAGAAATGCCTATTGT+TGG 0.451563 7.2:+15752354 MS.gene52693:CDS
AGTAATTGGTGGCTGTAGCC+AGG 0.462789 7.2:-15751978 None:intergenic
TGCCTATTGTTGGTGGAACT+GGG 0.470280 7.2:+15752364 MS.gene52693:CDS
AGTGATGAGTAGAGTTATGG+AGG 0.472651 7.2:-15751929 None:intergenic
TTCAATATCACAAGATGAGA+TGG 0.473863 7.2:+15752236 MS.gene52693:CDS
TGTAGCCAGGGATATGTAGA+AGG 0.480162 7.2:-15751965 None:intergenic
ACGAGTTTCGAGTCAAGTTC+AGG 0.480237 7.2:-15752189 None:intergenic
GCCCCAGTTCCACCAACAAT+AGG 0.482868 7.2:-15752366 None:intergenic
CTATCACTGCGCTTGCTTTG+GGG 0.493102 7.2:-15752086 None:intergenic
AGAGAAATGCCTATTGTTGG+TGG 0.501448 7.2:+15752357 MS.gene52693:CDS
TATTTCCTTCTACATATCCC+TGG 0.511715 7.2:+15751960 MS.gene52693:CDS
AGATGAGATGGGACTAATGA+TGG 0.517218 7.2:+15752248 MS.gene52693:CDS
TGCCACTGGAAATGCTGTTG+TGG 0.551249 7.2:+15752440 MS.gene52693:CDS
TCTTGAAAACCCAACAACGC+TGG 0.564827 7.2:-15752015 None:intergenic
AAACTCGTGGGTAAATCTCA+AGG 0.575493 7.2:+15752204 MS.gene52693:CDS
TATTTCCACGACGTTATGGA+AGG 0.579634 7.2:+15752063 MS.gene52693:CDS
GTAATTGGTGGCTGTAGCCA+GGG 0.582669 7.2:-15751977 None:intergenic
GGAGGAAGATAATATTGATG+AGG 0.584179 7.2:-15751911 None:intergenic
TCTTCCATTCGGGACAGTAG+TGG 0.595859 7.2:+15752140 MS.gene52693:CDS
ATGACATGGGCGTTCTCAGA+GGG 0.596194 7.2:+15752273 MS.gene52693:CDS
CGTCGTGGAAATAGAAGTGA+AGG 0.596236 7.2:-15752053 None:intergenic
AAAACTCACAGAGTAAAACT+TGG 0.604813 7.2:-15752418 None:intergenic
TCAATATCACAAGATGAGAT+GGG 0.609527 7.2:+15752237 MS.gene52693:CDS
CGTGGAAATAGAAGTGAAGG+TGG 0.612098 7.2:-15752050 None:intergenic
GCCTATTGTTGGTGGAACTG+GGG 0.613108 7.2:+15752365 MS.gene52693:CDS
AGTAGCCGAGCCCAACGGCA+AGG 0.624037 7.2:+15752107 MS.gene52693:CDS
AGTTCAGGCCCAATCGTCAA+CGG 0.624507 7.2:-15752174 None:intergenic
ATAGCCACTACTGTCCCGAA+TGG 0.625090 7.2:-15752144 None:intergenic
GTGATAGTAGCCGAGCCCAA+CGG 0.625680 7.2:+15752102 MS.gene52693:CDS
GCACACTTAGTATATTGGCT+AGG 0.626552 7.2:+15752310 MS.gene52693:CDS
TGAACTTGACTCGAAACTCG+TGG 0.629246 7.2:+15752191 MS.gene52693:CDS
GAACTTGACTCGAAACTCGT+GGG 0.645746 7.2:+15752192 MS.gene52693:CDS
GACTAATGATGGTTATGACA+TGG 0.654276 7.2:+15752259 MS.gene52693:CDS
TTCCACAACAGCATTTCCAG+TGG 0.674988 7.2:-15752442 None:intergenic
TGGGGCCTTCCATAACGTCG+TGG 0.678061 7.2:-15752068 None:intergenic
TATGACATGGGCGTTCTCAG+AGG 0.685781 7.2:+15752272 MS.gene52693:CDS
GTGGAAATAGAAGTGAAGGT+GGG 0.689028 7.2:-15752049 None:intergenic
ACTAATGATGGTTATGACAT+GGG 0.689534 7.2:+15752260 MS.gene52693:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGATAAGCTTTTGTAGTAAT+TGG - chr7.2:15751995-15752014 None:intergenic 25.0%
AAAACTCACAGAGTAAAACT+TGG - chr7.2:15752421-15752440 None:intergenic 30.0%
ACAATAGGCATTTCTCTAAT+AGG - chr7.2:15752354-15752373 None:intergenic 30.0%
ACTAATGATGGTTATGACAT+GGG + chr7.2:15752260-15752279 MS.gene52693:CDS 30.0%
ATTAGAGAAATGCCTATTGT+TGG + chr7.2:15752354-15752373 MS.gene52693:CDS 30.0%
GTTGAAAATTGTCTTCCATT+CGG + chr7.2:15752129-15752148 MS.gene52693:CDS 30.0%
TCAATATCACAAGATGAGAT+GGG + chr7.2:15752237-15752256 MS.gene52693:CDS 30.0%
TTCAATATCACAAGATGAGA+TGG + chr7.2:15752236-15752255 MS.gene52693:CDS 30.0%
TTGAAAATTGTCTTCCATTC+GGG + chr7.2:15752130-15752149 MS.gene52693:CDS 30.0%
! TAAGCTTTTGTAGTAATTGG+TGG - chr7.2:15751992-15752011 None:intergenic 30.0%
GACTAATGATGGTTATGACA+TGG + chr7.2:15752259-15752278 MS.gene52693:CDS 35.0%
GGAGGAAGATAATATTGATG+AGG - chr7.2:15751914-15751933 None:intergenic 35.0%
GGGATATGTAGAAGGAAATA+AGG - chr7.2:15751960-15751979 None:intergenic 35.0%
TAGAGTGATGAGTAGAGTTA+TGG - chr7.2:15751935-15751954 None:intergenic 35.0%
TATTTCCTTCTACATATCCC+TGG + chr7.2:15751960-15751979 MS.gene52693:CDS 35.0%
TTCTCAGAGGGAGAATTTAA+TGG + chr7.2:15752285-15752304 MS.gene52693:CDS 35.0%
! TGGAAGCACACTTAGTATAT+TGG + chr7.2:15752305-15752324 MS.gene52693:CDS 35.0%
AAACTCGTGGGTAAATCTCA+AGG + chr7.2:15752204-15752223 MS.gene52693:CDS 40.0%
AGAGAAATGCCTATTGTTGG+TGG + chr7.2:15752357-15752376 MS.gene52693:CDS 40.0%
AGATGAGATGGGACTAATGA+TGG + chr7.2:15752248-15752267 MS.gene52693:CDS 40.0%
AGTGATGAGTAGAGTTATGG+AGG - chr7.2:15751932-15751951 None:intergenic 40.0%
CTTCTATTTCCACGACGTTA+TGG + chr7.2:15752059-15752078 MS.gene52693:CDS 40.0%
GTGGAAATAGAAGTGAAGGT+GGG - chr7.2:15752052-15752071 None:intergenic 40.0%
TATTTCCACGACGTTATGGA+AGG + chr7.2:15752063-15752082 MS.gene52693:CDS 40.0%
! ACAATTTTCAACCTTGCCGT+TGG - chr7.2:15752121-15752140 None:intergenic 40.0%
! ATTGATGATCCGTTGACGAT+TGG + chr7.2:15752165-15752184 MS.gene52693:CDS 40.0%
! CAATTTTCAACCTTGCCGTT+GGG - chr7.2:15752120-15752139 None:intergenic 40.0%
! GCACACTTAGTATATTGGCT+AGG + chr7.2:15752310-15752329 MS.gene52693:CDS 40.0%
! TTGATGATCCGTTGACGATT+GGG + chr7.2:15752166-15752185 MS.gene52693:CDS 40.0%
AAGCTTATCTCCAGCGTTGT+TGG + chr7.2:15752005-15752024 MS.gene52693:CDS 45.0%
ACTATCACTGCGCTTGCTTT+GGG - chr7.2:15752090-15752109 None:intergenic 45.0%
AGCTTATCTCCAGCGTTGTT+GGG + chr7.2:15752006-15752025 MS.gene52693:CDS 45.0%
CGTCGTGGAAATAGAAGTGA+AGG - chr7.2:15752056-15752075 None:intergenic 45.0%
CGTGGAAATAGAAGTGAAGG+TGG - chr7.2:15752053-15752072 None:intergenic 45.0%
TACTATCACTGCGCTTGCTT+TGG - chr7.2:15752091-15752110 None:intergenic 45.0%
TCTTGAAAACCCAACAACGC+TGG - chr7.2:15752018-15752037 None:intergenic 45.0%
TGTAGCCAGGGATATGTAGA+AGG - chr7.2:15751968-15751987 None:intergenic 45.0%
TTCCACAACAGCATTTCCAG+TGG - chr7.2:15752445-15752464 None:intergenic 45.0%
! ACGAGTTTCGAGTCAAGTTC+AGG - chr7.2:15752192-15752211 None:intergenic 45.0%
! ATGCCTATTGTTGGTGGAAC+TGG + chr7.2:15752363-15752382 MS.gene52693:CDS 45.0%
! GAACTTGACTCGAAACTCGT+GGG + chr7.2:15752192-15752211 MS.gene52693:CDS 45.0%
! GGGGCTTTTAGATTTGTACG+TGG + chr7.2:15752384-15752403 MS.gene52693:CDS 45.0%
! TACTCTGTGAGTTTTGCCAC+TGG + chr7.2:15752426-15752445 MS.gene52693:CDS 45.0%
! TGAACTTGACTCGAAACTCG+TGG + chr7.2:15752191-15752210 MS.gene52693:CDS 45.0%
! TGCCTATTGTTGGTGGAACT+GGG + chr7.2:15752364-15752383 MS.gene52693:CDS 45.0%
AGTTCAGGCCCAATCGTCAA+CGG - chr7.2:15752177-15752196 None:intergenic 50.0%
ATAGCCACTACTGTCCCGAA+TGG - chr7.2:15752147-15752166 None:intergenic 50.0%
ATGACATGGGCGTTCTCAGA+GGG + chr7.2:15752273-15752292 MS.gene52693:CDS 50.0%
CTATCACTGCGCTTGCTTTG+GGG - chr7.2:15752089-15752108 None:intergenic 50.0%
TATGACATGGGCGTTCTCAG+AGG + chr7.2:15752272-15752291 MS.gene52693:CDS 50.0%
TCTTCCATTCGGGACAGTAG+TGG + chr7.2:15752140-15752159 MS.gene52693:CDS 50.0%
TGCCACTGGAAATGCTGTTG+TGG + chr7.2:15752440-15752459 MS.gene52693:CDS 50.0%
! AGTAATTGGTGGCTGTAGCC+AGG - chr7.2:15751981-15752000 None:intergenic 50.0%
! GCCTATTGTTGGTGGAACTG+GGG + chr7.2:15752365-15752384 MS.gene52693:CDS 50.0%
! GTAATTGGTGGCTGTAGCCA+GGG - chr7.2:15751980-15751999 None:intergenic 50.0%
GCCCCAGTTCCACCAACAAT+AGG - chr7.2:15752369-15752388 None:intergenic 55.0%
GTGATAGTAGCCGAGCCCAA+CGG + chr7.2:15752102-15752121 MS.gene52693:CDS 55.0%
TTCAACCTTGCCGTTGGGCT+CGG - chr7.2:15752115-15752134 None:intergenic 55.0%
TGGGGCCTTCCATAACGTCG+TGG - chr7.2:15752071-15752090 None:intergenic 60.0%
AGTAGCCGAGCCCAACGGCA+AGG + chr7.2:15752107-15752126 MS.gene52693:CDS 65.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 15751901 15752491 15751901 ID=MS.gene52693
chr7.2 mRNA 15751901 15752491 15751901 ID=MS.gene52693.t1;Parent=MS.gene52693
chr7.2 exon 15751901 15752491 15751901 ID=MS.gene52693.t1.exon1;Parent=MS.gene52693.t1
chr7.2 CDS 15751901 15752491 15751901 ID=cds.MS.gene52693.t1;Parent=MS.gene52693.t1
Gene Sequence

>MS.gene52693

ATGGCAAAATCCTCATCAATATTATCTTCCTCCATAACTCTACTCATCACTCTAAACCTTATTTCCTTCTACATATCCCTGGCTACAGCCACCAATTACTACAAAAGCTTATCTCCAGCGTTGTTGGGTTTTCAAGAAGAGAAGTTCACCCACCTTCACTTCTATTTCCACGACGTTATGGAAGGCCCCAAAGCAAGCGCAGTGATAGTAGCCGAGCCCAACGGCAAGGTTGAAAATTGTCTTCCATTCGGGACAGTAGTGGCTATTGATGATCCGTTGACGATTGGGCCTGAACTTGACTCGAAACTCGTGGGTAAATCTCAAGGAATTTACGCTTCAATATCACAAGATGAGATGGGACTAATGATGGTTATGACATGGGCGTTCTCAGAGGGAGAATTTAATGGAAGCACACTTAGTATATTGGCTAGGAACATGATCGTGAGTGAACCTATTAGAGAAATGCCTATTGTTGGTGGAACTGGGGCTTTTAGATTTGTACGTGGTTATGCTCAAGCCAAGTTTTACTCTGTGAGTTTTGCCACTGGAAATGCTGTTGTGGAATATGATGTATTCGTGTTCCATTATTAA
Protein sequence

>MS.gene52693.t1

MAKSSSILSSSITLLITLNLISFYISLATATNYYKSLSPALLGFQEEKFTHLHFYFHDVMEGPKASAVIVAEPNGKVENCLPFGTVVAIDDPLTIGPELDSKLVGKSQGIYASISQDEMGLMMVMTWAFSEGEFNGSTLSILARNMIVSEPIREMPIVGGTGAFRFVRGYAQAKFYSVSFATGNAVVEYDVFVFHY