AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055964

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055964.t1 MTR_7g093790 93.367 196 8 1 1 196 1 191 7.63e-133 370
MS.gene055964.t1 MTR_7g093820 78.680 197 38 2 1 196 1 194 2.18e-112 318
MS.gene055964.t1 MTR_7g093850 77.665 197 40 2 1 196 1 194 6.31e-111 315
MS.gene055964.t1 MTR_7g093830 77.487 191 40 2 8 196 4 193 2.06e-108 308
MS.gene055964.t1 MTR_7g093870 56.250 176 70 4 26 196 20 193 2.26e-68 208
MS.gene055964.t1 MTR_4g013350 51.807 166 78 2 32 196 33 197 1.37e-59 185
MS.gene055964.t1 MTR_1g054525 50.000 184 84 4 18 196 12 192 2.27e-57 179
MS.gene055964.t1 MTR_4g013320 52.632 152 71 1 45 196 49 199 1.50e-56 177
MS.gene055964.t1 MTR_4g013335 47.590 166 83 3 32 196 34 196 3.71e-56 176
MS.gene055964.t1 MTR_4g013345 48.795 166 83 2 32 196 32 196 1.99e-55 174
MS.gene055964.t1 MTR_4g013310 49.398 166 80 3 32 196 35 197 4.05e-54 171
MS.gene055964.t1 MTR_4g013330 47.024 168 85 3 32 196 33 199 7.11e-54 171
MS.gene055964.t1 MTR_4g013325 51.370 146 70 1 51 196 55 199 3.37e-53 169
MS.gene055964.t1 MTR_7g070390 47.027 185 94 3 14 196 10 192 5.95e-51 163
MS.gene055964.t1 MTR_4g073950 49.020 153 76 2 45 196 41 192 1.88e-47 154
MS.gene055964.t1 MTR_4g013385 44.199 181 94 5 20 196 13 190 3.58e-47 153
MS.gene055964.t1 MTR_0433s0040 44.199 181 94 5 20 196 13 190 3.58e-47 153
MS.gene055964.t1 MTR_4g013770 43.114 167 92 3 31 196 27 191 2.12e-46 151
MS.gene055964.t1 MTR_3g105640 44.086 186 100 4 13 196 5 188 3.42e-46 150
MS.gene055964.t1 MTR_3g105630 41.885 191 104 4 9 196 3 189 3.19e-45 148
MS.gene055964.t1 MTR_1g056370 40.642 187 98 5 20 195 1 185 2.64e-43 143
MS.gene055964.t1 MTR_5g096120 46.471 170 79 5 33 196 26 189 1.35e-42 141
MS.gene055964.t1 MTR_4g013355 38.953 172 93 2 25 196 20 179 2.06e-40 135
MS.gene055964.t1 MTR_3g034030 40.625 192 105 6 6 196 2 185 3.71e-39 132
MS.gene055964.t1 MTR_4g078885 40.104 192 106 6 6 196 2 185 5.48e-39 132
MS.gene055964.t1 MTR_4g122130 42.384 151 86 1 46 196 31 180 9.65e-32 113
MS.gene055964.t1 MTR_4g122110 41.060 151 88 1 46 196 31 180 4.26e-31 112
MS.gene055964.t1 MTR_4g049550 32.821 195 105 4 1 191 1 173 4.07e-21 86.3
MS.gene055964.t1 MTR_4g049570 36.719 128 80 1 43 170 26 152 1.16e-20 85.1
MS.gene055964.t1 MTR_1g046800 43.617 94 51 2 81 174 134 225 1.33e-14 70.1
MS.gene055964.t1 MTR_1g046490 42.553 94 52 2 81 174 120 211 1.88e-14 69.7
MS.gene055964.t1 MTR_1g046500 43.617 94 51 2 81 174 134 225 2.23e-14 69.7
MS.gene055964.t1 MTR_8g099135 31.783 129 70 5 55 171 38 160 1.61e-11 60.8
MS.gene055964.t1 MTR_8g099115 28.986 138 80 4 46 171 33 164 4.36e-11 59.7
MS.gene055964.t1 MTR_4g062520 36.449 107 67 1 73 179 177 282 4.62e-11 60.8
MS.gene055964.t1 MTR_4g062470 36.449 107 67 1 73 179 178 283 5.32e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055964.t1 AT5G42500 51.497 167 77 3 29 195 23 185 6.12e-53 167
MS.gene055964.t1 AT1G58170 43.827 162 90 1 35 196 25 185 2.56e-51 164
MS.gene055964.t1 AT5G42510 49.405 168 81 3 28 195 19 182 2.61e-51 163
MS.gene055964.t1 AT1G65870 49.677 155 73 3 43 195 38 189 3.43e-50 161
MS.gene055964.t1 AT1G22900 46.486 185 87 4 11 195 21 193 2.00e-49 159
MS.gene055964.t1 AT3G13650 40.113 177 102 2 20 196 14 186 2.46e-47 153
MS.gene055964.t1 AT1G55210 41.279 172 96 3 26 196 20 187 6.66e-47 152
MS.gene055964.t1 AT1G55210 41.279 172 96 3 26 196 20 187 6.66e-47 152
MS.gene055964.t1 AT5G49040 38.071 197 115 3 1 196 1 191 2.86e-46 151
MS.gene055964.t1 AT4G38700 40.741 189 105 4 13 196 4 190 4.34e-42 140
MS.gene055964.t1 AT2G21110 38.378 185 100 5 20 196 8 186 6.14e-41 137
MS.gene055964.t1 AT3G13662 37.143 175 105 3 10 183 2 172 2.19e-40 135
MS.gene055964.t1 AT2G21100 37.949 195 113 2 1 195 1 187 5.28e-40 135
MS.gene055964.t1 AT2G21100 37.949 195 113 2 1 195 1 187 5.28e-40 135
MS.gene055964.t1 AT3G58090 52.033 123 53 2 73 195 155 271 2.39e-38 133
MS.gene055964.t1 AT5G49030 38.857 175 100 3 1 174 1 169 4.88e-36 133
MS.gene055964.t1 AT3G13660 44.737 114 62 1 83 196 13 125 7.40e-32 112
MS.gene055964.t1 AT3G24020 39.362 94 55 2 81 174 127 218 2.06e-11 61.6
MS.gene055964.t1 AT1G64160 30.233 129 82 4 45 169 31 155 2.27e-11 60.5
MS.gene055964.t1 AT4G11210 30.556 144 92 5 29 171 22 158 3.12e-11 60.1
MS.gene055964.t1 AT4G13580 38.298 94 56 2 81 174 128 219 5.14e-11 60.5

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 7.4:-15275393 None:intergenic
TACTATCACTGCGCTTGCTT+TGG 0.236778 7.4:-15275394 None:intergenic
ACAATAGGCATTTCTCTAAT+AGG 0.277388 7.4:-15275657 None:intergenic
TTCTCAGAGGGAGAATTTAA+TGG 0.312603 7.4:+15275591 MS.gene055964:CDS
TGGAAGCACACTTAGTATAT+TGG 0.330019 7.4:+15275611 MS.gene055964:CDS
ATGCCTATTGTTGGTGGAAC+TGG 0.330790 7.4:+15275669 MS.gene055964:CDS
TTGAAAATTGTCTTCCATTC+GGG 0.334163 7.4:+15275436 MS.gene055964:CDS
TAATGCTAATTAATTAATAA+TGG 0.335277 7.4:-15275788 None:intergenic
TAGAGTGATGAGTAGAGTTA+TGG 0.353183 7.4:-15275238 None:intergenic
GGGATATGTAGAAGGAAATA+AGG 0.357210 7.4:-15275263 None:intergenic
AAGCTTATCTCCAGCGTTGT+TGG 0.381055 7.4:+15275311 MS.gene055964:CDS
GTTGAAAATTGTCTTCCATT+CGG 0.400576 7.4:+15275435 MS.gene055964:CDS
CTTCTATTTCCACGACGTTA+TGG 0.402399 7.4:+15275365 MS.gene055964:CDS
AGCTTATCTCCAGCGTTGTT+GGG 0.411907 7.4:+15275312 MS.gene055964:CDS
TTGATGATCCGTTGACGATT+GGG 0.420870 7.4:+15275472 MS.gene055964:CDS
TTCAACCTTGCCGTTGGGCT+CGG 0.423251 7.4:-15275418 None:intergenic
ATTGATGATCCGTTGACGAT+TGG 0.429792 7.4:+15275471 MS.gene055964:CDS
ATTAGAGAAATGCCTATTGT+TGG 0.451563 7.4:+15275660 MS.gene055964:CDS
AGTAATTGGTGGCTGTAGCC+AGG 0.462789 7.4:-15275284 None:intergenic
TGCCTATTGTTGGTGGAACT+GGG 0.470280 7.4:+15275670 MS.gene055964:CDS
AGTGATGAGTAGAGTTATGG+AGG 0.472651 7.4:-15275235 None:intergenic
TTCAATATCACAAGATGAGA+TGG 0.473863 7.4:+15275542 MS.gene055964:CDS
TGTAGCCAGGGATATGTAGA+AGG 0.480162 7.4:-15275271 None:intergenic
ACGAGTTTCGAGTCAAGTTC+AGG 0.480237 7.4:-15275495 None:intergenic
GCCCCAGTTCCACCAACAAT+AGG 0.482868 7.4:-15275672 None:intergenic
CTATCACTGCGCTTGCTTTG+GGG 0.493102 7.4:-15275392 None:intergenic
AGAGAAATGCCTATTGTTGG+TGG 0.501448 7.4:+15275663 MS.gene055964:CDS
TATTTCCTTCTACATATCCC+TGG 0.511715 7.4:+15275266 MS.gene055964:CDS
AGATGAGATGGGACTAATGA+TGG 0.517218 7.4:+15275554 MS.gene055964:CDS
TGCCACTGGAAATGCTGTTG+TGG 0.551249 7.4:+15275746 MS.gene055964:CDS
TCTTGAAAACCCAACAACGC+TGG 0.564827 7.4:-15275321 None:intergenic
TATTTCCACGACGTTATGGA+AGG 0.579634 7.4:+15275369 MS.gene055964:CDS
GTAATTGGTGGCTGTAGCCA+GGG 0.582669 7.4:-15275283 None:intergenic
GGAGGAAGATAATATTGATG+AGG 0.584179 7.4:-15275217 None:intergenic
AAACTCGTGGGTAAAGCTCA+AGG 0.587917 7.4:+15275510 MS.gene055964:CDS
TCTTCCATTCGGGACAGTAG+TGG 0.595859 7.4:+15275446 MS.gene055964:CDS
ATGACATGGGCGTTCTCAGA+GGG 0.596194 7.4:+15275579 MS.gene055964:CDS
CGTCGTGGAAATAGAAGTGA+AGG 0.596236 7.4:-15275359 None:intergenic
AAAACTCACAGAGTAAAACT+TGG 0.604813 7.4:-15275724 None:intergenic
TCAATATCACAAGATGAGAT+GGG 0.609527 7.4:+15275543 MS.gene055964:CDS
CGTGGAAATAGAAGTGAAGG+TGG 0.612098 7.4:-15275356 None:intergenic
GCCTATTGTTGGTGGAACTG+GGG 0.613108 7.4:+15275671 MS.gene055964:CDS
AGTAGCCGAGCCCAACGGCA+AGG 0.624037 7.4:+15275413 MS.gene055964:CDS
AGTTCAGGCCCAATCGTCAA+CGG 0.624507 7.4:-15275480 None:intergenic
ATAGCCACTACTGTCCCGAA+TGG 0.625090 7.4:-15275450 None:intergenic
GTGATAGTAGCCGAGCCCAA+CGG 0.625680 7.4:+15275408 MS.gene055964:CDS
GCACACTTAGTATATTGGCT+AGG 0.626552 7.4:+15275616 MS.gene055964:CDS
TGAACTTGACTCGAAACTCG+TGG 0.629246 7.4:+15275497 MS.gene055964:CDS
GAACTTGACTCGAAACTCGT+GGG 0.645746 7.4:+15275498 MS.gene055964:CDS
GACTAATGATGGTTATGACA+TGG 0.654276 7.4:+15275565 MS.gene055964:CDS
TTCCACAACAGCATTTCCAG+TGG 0.674988 7.4:-15275748 None:intergenic
TGGGGCCTTCCATAACGTCG+TGG 0.678061 7.4:-15275374 None:intergenic
TATGACATGGGCGTTCTCAG+AGG 0.685781 7.4:+15275578 MS.gene055964:CDS
GTGGAAATAGAAGTGAAGGT+GGG 0.689028 7.4:-15275355 None:intergenic
ACTAATGATGGTTATGACAT+GGG 0.689534 7.4:+15275566 MS.gene055964:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGATAAGCTTTTGTAGTAAT+TGG - chr7.4:15275301-15275320 None:intergenic 25.0%
AAAACTCACAGAGTAAAACT+TGG - chr7.4:15275727-15275746 None:intergenic 30.0%
ACAATAGGCATTTCTCTAAT+AGG - chr7.4:15275660-15275679 None:intergenic 30.0%
ACTAATGATGGTTATGACAT+GGG + chr7.4:15275566-15275585 MS.gene055964:CDS 30.0%
ATTAGAGAAATGCCTATTGT+TGG + chr7.4:15275660-15275679 MS.gene055964:CDS 30.0%
GTTGAAAATTGTCTTCCATT+CGG + chr7.4:15275435-15275454 MS.gene055964:CDS 30.0%
TCAATATCACAAGATGAGAT+GGG + chr7.4:15275543-15275562 MS.gene055964:CDS 30.0%
TTCAATATCACAAGATGAGA+TGG + chr7.4:15275542-15275561 MS.gene055964:CDS 30.0%
TTGAAAATTGTCTTCCATTC+GGG + chr7.4:15275436-15275455 MS.gene055964:CDS 30.0%
! TAAGCTTTTGTAGTAATTGG+TGG - chr7.4:15275298-15275317 None:intergenic 30.0%
GACTAATGATGGTTATGACA+TGG + chr7.4:15275565-15275584 MS.gene055964:CDS 35.0%
GGAGGAAGATAATATTGATG+AGG - chr7.4:15275220-15275239 None:intergenic 35.0%
GGGATATGTAGAAGGAAATA+AGG - chr7.4:15275266-15275285 None:intergenic 35.0%
TAGAGTGATGAGTAGAGTTA+TGG - chr7.4:15275241-15275260 None:intergenic 35.0%
TATTTCCTTCTACATATCCC+TGG + chr7.4:15275266-15275285 MS.gene055964:CDS 35.0%
TTCTCAGAGGGAGAATTTAA+TGG + chr7.4:15275591-15275610 MS.gene055964:CDS 35.0%
! TGGAAGCACACTTAGTATAT+TGG + chr7.4:15275611-15275630 MS.gene055964:CDS 35.0%
AGAGAAATGCCTATTGTTGG+TGG + chr7.4:15275663-15275682 MS.gene055964:CDS 40.0%
AGATGAGATGGGACTAATGA+TGG + chr7.4:15275554-15275573 MS.gene055964:CDS 40.0%
AGTGATGAGTAGAGTTATGG+AGG - chr7.4:15275238-15275257 None:intergenic 40.0%
CTTCTATTTCCACGACGTTA+TGG + chr7.4:15275365-15275384 MS.gene055964:CDS 40.0%
GTGGAAATAGAAGTGAAGGT+GGG - chr7.4:15275358-15275377 None:intergenic 40.0%
TATTTCCACGACGTTATGGA+AGG + chr7.4:15275369-15275388 MS.gene055964:CDS 40.0%
! ACAATTTTCAACCTTGCCGT+TGG - chr7.4:15275427-15275446 None:intergenic 40.0%
! ATTGATGATCCGTTGACGAT+TGG + chr7.4:15275471-15275490 MS.gene055964:CDS 40.0%
! CAATTTTCAACCTTGCCGTT+GGG - chr7.4:15275426-15275445 None:intergenic 40.0%
! GCACACTTAGTATATTGGCT+AGG + chr7.4:15275616-15275635 MS.gene055964:CDS 40.0%
! TTGATGATCCGTTGACGATT+GGG + chr7.4:15275472-15275491 MS.gene055964:CDS 40.0%
AAACTCGTGGGTAAAGCTCA+AGG + chr7.4:15275510-15275529 MS.gene055964:CDS 45.0%
AAGCTTATCTCCAGCGTTGT+TGG + chr7.4:15275311-15275330 MS.gene055964:CDS 45.0%
ACTATCACTGCGCTTGCTTT+GGG - chr7.4:15275396-15275415 None:intergenic 45.0%
AGCTTATCTCCAGCGTTGTT+GGG + chr7.4:15275312-15275331 MS.gene055964:CDS 45.0%
CGTCGTGGAAATAGAAGTGA+AGG - chr7.4:15275362-15275381 None:intergenic 45.0%
CGTGGAAATAGAAGTGAAGG+TGG - chr7.4:15275359-15275378 None:intergenic 45.0%
TACTATCACTGCGCTTGCTT+TGG - chr7.4:15275397-15275416 None:intergenic 45.0%
TCTTGAAAACCCAACAACGC+TGG - chr7.4:15275324-15275343 None:intergenic 45.0%
TGTAGCCAGGGATATGTAGA+AGG - chr7.4:15275274-15275293 None:intergenic 45.0%
TTCCACAACAGCATTTCCAG+TGG - chr7.4:15275751-15275770 None:intergenic 45.0%
! ACGAGTTTCGAGTCAAGTTC+AGG - chr7.4:15275498-15275517 None:intergenic 45.0%
! ATGCCTATTGTTGGTGGAAC+TGG + chr7.4:15275669-15275688 MS.gene055964:CDS 45.0%
! GAACTTGACTCGAAACTCGT+GGG + chr7.4:15275498-15275517 MS.gene055964:CDS 45.0%
! GGGGCTTTTAGATTTGTACG+TGG + chr7.4:15275690-15275709 MS.gene055964:CDS 45.0%
! TACTCTGTGAGTTTTGCCAC+TGG + chr7.4:15275732-15275751 MS.gene055964:CDS 45.0%
! TGAACTTGACTCGAAACTCG+TGG + chr7.4:15275497-15275516 MS.gene055964:CDS 45.0%
! TGCCTATTGTTGGTGGAACT+GGG + chr7.4:15275670-15275689 MS.gene055964:CDS 45.0%
AGTTCAGGCCCAATCGTCAA+CGG - chr7.4:15275483-15275502 None:intergenic 50.0%
ATAGCCACTACTGTCCCGAA+TGG - chr7.4:15275453-15275472 None:intergenic 50.0%
ATGACATGGGCGTTCTCAGA+GGG + chr7.4:15275579-15275598 MS.gene055964:CDS 50.0%
CTATCACTGCGCTTGCTTTG+GGG - chr7.4:15275395-15275414 None:intergenic 50.0%
TATGACATGGGCGTTCTCAG+AGG + chr7.4:15275578-15275597 MS.gene055964:CDS 50.0%
TCTTCCATTCGGGACAGTAG+TGG + chr7.4:15275446-15275465 MS.gene055964:CDS 50.0%
TGCCACTGGAAATGCTGTTG+TGG + chr7.4:15275746-15275765 MS.gene055964:CDS 50.0%
! AGTAATTGGTGGCTGTAGCC+AGG - chr7.4:15275287-15275306 None:intergenic 50.0%
! GCCTATTGTTGGTGGAACTG+GGG + chr7.4:15275671-15275690 MS.gene055964:CDS 50.0%
! GTAATTGGTGGCTGTAGCCA+GGG - chr7.4:15275286-15275305 None:intergenic 50.0%
GCCCCAGTTCCACCAACAAT+AGG - chr7.4:15275675-15275694 None:intergenic 55.0%
GTGATAGTAGCCGAGCCCAA+CGG + chr7.4:15275408-15275427 MS.gene055964:CDS 55.0%
TTCAACCTTGCCGTTGGGCT+CGG - chr7.4:15275421-15275440 None:intergenic 55.0%
TGGGGCCTTCCATAACGTCG+TGG - chr7.4:15275377-15275396 None:intergenic 60.0%
AGTAGCCGAGCCCAACGGCA+AGG + chr7.4:15275413-15275432 MS.gene055964:CDS 65.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 15275207 15275797 15275207 ID=MS.gene055964
chr7.4 mRNA 15275207 15275797 15275207 ID=MS.gene055964.t1;Parent=MS.gene055964
chr7.4 exon 15275207 15275797 15275207 ID=MS.gene055964.t1.exon1;Parent=MS.gene055964.t1
chr7.4 CDS 15275207 15275797 15275207 ID=cds.MS.gene055964.t1;Parent=MS.gene055964.t1
Gene Sequence

>MS.gene055964

ATGGCAAAATCCTCATCAATATTATCTTCCTCCATAACTCTACTCATCACTCTAAACCTTATTTCCTTCTACATATCCCTGGCTACAGCCACCAATTACTACAAAAGCTTATCTCCAGCGTTGTTGGGTTTTCAAGAAGAGAAGTTCACCCACCTTCACTTCTATTTCCACGACGTTATGGAAGGCCCCAAAGCAAGCGCAGTGATAGTAGCCGAGCCCAACGGCAAGGTTGAAAATTGTCTTCCATTCGGGACAGTAGTGGCTATTGATGATCCGTTGACGATTGGGCCTGAACTTGACTCGAAACTCGTGGGTAAAGCTCAAGGAATTTACGCTTCAATATCACAAGATGAGATGGGACTAATGATGGTTATGACATGGGCGTTCTCAGAGGGAGAATTTAATGGAAGCACACTTAGTATATTGGCTAGGAACATGATCGTGAGTGAACCTATTAGAGAAATGCCTATTGTTGGTGGAACTGGGGCTTTTAGATTTGTACGTGGTTATGCTCAAGCCAAGTTTTACTCTGTGAGTTTTGCCACTGGAAATGCTGTTGTGGAATATGATGTATTCGTGTTCCATTATTAA
Protein sequence

>MS.gene055964.t1

MAKSSSILSSSITLLITLNLISFYISLATATNYYKSLSPALLGFQEEKFTHLHFYFHDVMEGPKASAVIVAEPNGKVENCLPFGTVVAIDDPLTIGPELDSKLVGKAQGIYASISQDEMGLMMVMTWAFSEGEFNGSTLSILARNMIVSEPIREMPIVGGTGAFRFVRGYAQAKFYSVSFATGNAVVEYDVFVFHY