AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33680

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33680.t1 MTR_4g013345 96.429 196 7 0 1 196 1 196 5.56e-134 373
MS.gene33680.t1 MTR_4g013350 87.310 197 24 1 1 196 1 197 1.56e-120 339
MS.gene33680.t1 MTR_4g013330 82.412 199 32 2 1 196 1 199 2.15e-112 319
MS.gene33680.t1 MTR_4g013320 75.000 184 43 1 16 196 16 199 2.98e-105 301
MS.gene33680.t1 MTR_4g013335 76.374 182 40 2 16 196 17 196 1.38e-101 291
MS.gene33680.t1 MTR_4g013310 69.347 199 56 2 1 196 1 197 5.09e-91 265
MS.gene33680.t1 MTR_4g013325 74.000 200 47 2 1 196 1 199 8.63e-91 264
MS.gene33680.t1 MTR_7g070390 64.062 192 67 2 6 196 2 192 2.09e-80 238
MS.gene33680.t1 MTR_4g013385 59.043 188 72 3 9 196 8 190 5.77e-76 226
MS.gene33680.t1 MTR_0433s0040 59.043 188 72 3 9 196 8 190 5.77e-76 226
MS.gene33680.t1 MTR_1g054525 56.122 196 82 2 1 196 1 192 2.37e-69 209
MS.gene33680.t1 MTR_4g013770 59.412 170 66 2 28 196 24 191 1.24e-65 200
MS.gene33680.t1 MTR_4g013355 53.723 188 73 3 9 196 6 179 9.00e-65 197
MS.gene33680.t1 MTR_7g093820 48.649 185 93 2 13 196 11 194 4.15e-56 176
MS.gene33680.t1 MTR_7g093850 47.568 185 95 2 13 196 11 194 1.00e-55 175
MS.gene33680.t1 MTR_7g093830 46.486 185 97 2 13 196 10 193 1.09e-54 172
MS.gene33680.t1 MTR_4g073950 52.632 152 71 1 46 196 41 192 1.38e-54 172
MS.gene33680.t1 MTR_7g093870 52.564 156 69 2 46 196 38 193 8.38e-53 168
MS.gene33680.t1 MTR_7g093790 43.455 191 96 3 7 196 12 191 3.30e-52 166
MS.gene33680.t1 MTR_1g056370 46.358 151 79 2 46 195 36 185 4.51e-44 145
MS.gene33680.t1 MTR_3g105640 45.963 161 85 2 38 196 28 188 2.27e-42 141
MS.gene33680.t1 MTR_4g078885 44.966 149 80 1 48 196 39 185 2.44e-42 140
MS.gene33680.t1 MTR_5g096120 40.394 203 96 5 4 196 2 189 3.81e-42 140
MS.gene33680.t1 MTR_3g034030 45.638 149 79 1 48 196 39 185 6.08e-42 140
MS.gene33680.t1 MTR_3g105630 44.025 159 86 2 41 196 31 189 1.24e-39 134
MS.gene33680.t1 MTR_4g122110 36.301 146 93 0 51 196 35 180 2.05e-27 102
MS.gene33680.t1 MTR_4g122130 35.915 142 91 0 55 196 39 180 1.99e-24 94.7
MS.gene33680.t1 MTR_4g049570 31.469 143 98 0 49 191 31 173 9.63e-19 79.7
MS.gene33680.t1 MTR_4g049550 33.071 127 85 0 45 171 27 153 1.99e-18 79.0
MS.gene33680.t1 MTR_8g099115 33.088 136 82 3 48 175 34 168 1.60e-13 66.2
MS.gene33680.t1 MTR_8g099135 34.965 143 71 6 55 184 37 170 6.10e-12 62.0
MS.gene33680.t1 MTR_1g115510 34.959 123 67 5 83 195 234 353 6.62e-12 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33680.t1 AT1G55210 60.638 188 70 2 9 196 4 187 2.95e-79 234
MS.gene33680.t1 AT1G55210 60.638 188 70 2 9 196 4 187 2.95e-79 234
MS.gene33680.t1 AT1G58170 66.447 152 51 0 45 196 34 185 4.85e-74 221
MS.gene33680.t1 AT5G49040 54.787 188 85 0 9 196 4 191 9.55e-74 221
MS.gene33680.t1 AT3G13650 51.337 187 87 2 10 196 4 186 2.76e-66 202
MS.gene33680.t1 AT5G49030 54.335 173 79 0 9 181 4 176 1.27e-57 195
MS.gene33680.t1 AT3G13662 55.705 149 63 1 35 183 27 172 1.44e-53 169
MS.gene33680.t1 AT2G21100 51.007 149 73 0 47 195 39 187 2.30e-52 166
MS.gene33680.t1 AT2G21100 51.007 149 73 0 47 195 39 187 2.30e-52 166
MS.gene33680.t1 AT1G65870 51.656 151 73 0 45 195 39 189 2.42e-52 166
MS.gene33680.t1 AT3G13660 63.559 118 43 0 79 196 8 125 1.72e-49 157
MS.gene33680.t1 AT5G42500 48.667 150 75 1 46 195 38 185 4.14e-48 155
MS.gene33680.t1 AT1G22900 49.669 151 74 1 45 195 45 193 7.06e-48 155
MS.gene33680.t1 AT5G42510 48.000 150 76 1 46 195 35 182 9.36e-47 152
MS.gene33680.t1 AT3G58090 50.909 110 54 0 86 195 162 271 4.09e-36 127
MS.gene33680.t1 AT4G38700 37.186 199 109 6 4 196 2 190 1.70e-35 123
MS.gene33680.t1 AT2G21110 36.471 170 98 2 31 196 23 186 4.47e-34 119
MS.gene33680.t1 AT4G23690 32.576 132 82 3 44 171 34 162 5.64e-13 64.7
MS.gene33680.t1 AT4G11210 27.222 180 109 5 5 180 6 167 7.84e-13 64.3

Find 37 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTCGGGTCCTAAAGTTAA+AGG 0.186513 4.3:-84180498 None:intergenic
ATTGACAACCCTTTAACTTT+AGG 0.265955 4.3:+84180489 MS.gene33680:CDS
TTCATTGAAGGAAAGTATAA+TGG 0.275934 4.3:+84180609 MS.gene33680:CDS
TCTGCTTCACTGGAAGAAAT+AGG 0.308101 4.3:+84180561 MS.gene33680:CDS
TAAGTCATTTCAAATTATAT+TGG 0.313865 4.3:+84180370 MS.gene33680:CDS
CCTAACAACTTGCGATCTAT+TGG 0.340385 4.3:-84180327 None:intergenic
AACAAGTTTAGAACTCAATT+CGG 0.349877 4.3:-84180514 None:intergenic
GGGAGTACTATTACTATCTT+GGG 0.365410 4.3:+84180630 MS.gene33680:CDS
TGGGAGTACTATTACTATCT+TGG 0.368563 4.3:+84180629 MS.gene33680:CDS
GAGGAATCATGCTCGTAATA+AGG 0.371557 4.3:+84180653 MS.gene33680:CDS
ATGCCTGTTGTTGGTGGTAG+TGG 0.375988 4.3:+84180684 MS.gene33680:CDS
CCAATAGATCGCAAGTTGTT+AGG 0.388446 4.3:+84180327 MS.gene33680:CDS
GAACAAAGTGAGGAAATGTT+TGG 0.395828 4.3:-84180229 None:intergenic
CATTGGATTGATGCCAAAGC+TGG 0.410820 4.3:+84180747 MS.gene33680:CDS
TATTGGCATGACATAGTTAG+TGG 0.428044 4.3:+84180387 MS.gene33680:CDS
TCATTGAAGGAAAGTATAAT+GGG 0.435892 4.3:+84180610 MS.gene33680:CDS
ATTCGGGTCCTAAAGTTAAA+GGG 0.441542 4.3:-84180497 None:intergenic
ATCATGCTCGTAATAAGGTT+AGG 0.442060 4.3:+84180658 MS.gene33680:CDS
ATTCTATGCATCTGCTTCAC+TGG 0.446690 4.3:+84180551 MS.gene33680:CDS
AACACAAGCATCCCCAGCTT+TGG 0.447090 4.3:-84180760 None:intergenic
GGAACAACTGCAACCGAAGT+TGG 0.457572 4.3:-84180417 None:intergenic
ATGCTCAAGCTAGTACTCAT+TGG 0.460522 4.3:+84180730 MS.gene33680:CDS
GAATTGAGTTCTAAACTTGT+TGG 0.460969 4.3:+84180516 MS.gene33680:CDS
GTGTGTTACAAGAGATGAGA+AGG 0.467937 4.3:-84180257 None:intergenic
AAACTTGTTGGTAGAGCTCA+AGG 0.477359 4.3:+84180528 MS.gene33680:CDS
ACAAGTTTAGAACTCAATTC+GGG 0.477778 4.3:-84180513 None:intergenic
GTTAGGGAGATGCCTGTTGT+TGG 0.505285 4.3:+84180675 MS.gene33680:CDS
TCATGCTCGTAATAAGGTTA+GGG 0.511498 4.3:+84180659 MS.gene33680:CDS
AGTCCACTACCACCAACAAC+AGG 0.512977 4.3:-84180687 None:intergenic
CACACTCACTTCTTCAACAT+CGG 0.514156 4.3:+84180275 MS.gene33680:CDS
ATTGGATTGATGCCAAAGCT+GGG 0.519261 4.3:+84180748 MS.gene33680:CDS
AGGGAGATGCCTGTTGTTGG+TGG 0.521357 4.3:+84180678 MS.gene33680:CDS
GAAGGAAGAAGAACAAAGTG+AGG 0.531404 4.3:-84180239 None:intergenic
GTTGTTAGGCCTAAACAAGA+AGG 0.591926 4.3:+84180341 MS.gene33680:CDS
GTACTATTACTATCTTGGGG+AGG 0.673978 4.3:+84180634 MS.gene33680:CDS
GGAGTACTATTACTATCTTG+GGG 0.700411 4.3:+84180631 MS.gene33680:CDS
TTGGATTGATGCCAAAGCTG+GGG 0.710618 4.3:+84180749 MS.gene33680:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAGTCATTTCAAATTATAT+TGG + chr4.3:84180370-84180389 MS.gene33680:CDS 15.0%
!! AACAAGTTTAGAACTCAATT+CGG - chr4.3:84180517-84180536 None:intergenic 25.0%
!! ATGAATTTTGCTTTCATTGA+AGG + chr4.3:84180597-84180616 MS.gene33680:CDS 25.0%
!! TCATTGAAGGAAAGTATAAT+GGG + chr4.3:84180610-84180629 MS.gene33680:CDS 25.0%
!! TTCATTGAAGGAAAGTATAA+TGG + chr4.3:84180609-84180628 MS.gene33680:CDS 25.0%
TAGTGGAAAAAATCCAACTT+CGG + chr4.3:84180404-84180423 MS.gene33680:CDS 30.0%
! ACAAGTTTAGAACTCAATTC+GGG - chr4.3:84180516-84180535 None:intergenic 30.0%
! ATTGACAACCCTTTAACTTT+AGG + chr4.3:84180489-84180508 MS.gene33680:CDS 30.0%
!! GAATTGAGTTCTAAACTTGT+TGG + chr4.3:84180516-84180535 MS.gene33680:CDS 30.0%
!! GTTGAGTTTACTTTTGATGA+TGG - chr4.3:84180444-84180463 None:intergenic 30.0%
!! TTAGCTTTTCCTTCTTGTTT+AGG - chr4.3:84180353-84180372 None:intergenic 30.0%
!!! GTAAACTCAACCACTTTTTT+TGG + chr4.3:84180453-84180472 MS.gene33680:CDS 30.0%
AATTCGGGTCCTAAAGTTAA+AGG - chr4.3:84180501-84180520 None:intergenic 35.0%
ATCATGCTCGTAATAAGGTT+AGG + chr4.3:84180658-84180677 MS.gene33680:CDS 35.0%
ATTCGGGTCCTAAAGTTAAA+GGG - chr4.3:84180500-84180519 None:intergenic 35.0%
GAACAAAGTGAGGAAATGTT+TGG - chr4.3:84180232-84180251 None:intergenic 35.0%
GCTGACTAAACCAAAAAAAG+TGG - chr4.3:84180466-84180485 None:intergenic 35.0%
TATTGGCATGACATAGTTAG+TGG + chr4.3:84180387-84180406 MS.gene33680:CDS 35.0%
TCATGCTCGTAATAAGGTTA+GGG + chr4.3:84180659-84180678 MS.gene33680:CDS 35.0%
! GGAGTACTATTACTATCTTG+GGG + chr4.3:84180631-84180650 MS.gene33680:CDS 35.0%
!! GGGAGTACTATTACTATCTT+GGG + chr4.3:84180630-84180649 MS.gene33680:CDS 35.0%
!! TGGGAGTACTATTACTATCT+TGG + chr4.3:84180629-84180648 MS.gene33680:CDS 35.0%
!!! GAGTTTACTTTTGATGATGG+TGG - chr4.3:84180441-84180460 None:intergenic 35.0%
ATGCTCAAGCTAGTACTCAT+TGG + chr4.3:84180730-84180749 MS.gene33680:CDS 40.0%
ATTCTATGCATCTGCTTCAC+TGG + chr4.3:84180551-84180570 MS.gene33680:CDS 40.0%
ATTGGATTGATGCCAAAGCT+GGG + chr4.3:84180748-84180767 MS.gene33680:CDS 40.0%
CACACTCACTTCTTCAACAT+CGG + chr4.3:84180275-84180294 MS.gene33680:CDS 40.0%
CCAATAGATCGCAAGTTGTT+AGG + chr4.3:84180327-84180346 MS.gene33680:CDS 40.0%
CCTAACAACTTGCGATCTAT+TGG - chr4.3:84180330-84180349 None:intergenic 40.0%
GAAGGAAGAAGAACAAAGTG+AGG - chr4.3:84180242-84180261 None:intergenic 40.0%
GAGGAATCATGCTCGTAATA+AGG + chr4.3:84180653-84180672 MS.gene33680:CDS 40.0%
GTACTATTACTATCTTGGGG+AGG + chr4.3:84180634-84180653 MS.gene33680:CDS 40.0%
GTGTGTTACAAGAGATGAGA+AGG - chr4.3:84180260-84180279 None:intergenic 40.0%
GTTGTTAGGCCTAAACAAGA+AGG + chr4.3:84180341-84180360 MS.gene33680:CDS 40.0%
TCTGCTTCACTGGAAGAAAT+AGG + chr4.3:84180561-84180580 MS.gene33680:CDS 40.0%
!! AAACTTGTTGGTAGAGCTCA+AGG + chr4.3:84180528-84180547 MS.gene33680:CDS 40.0%
!!! GGACTTTTCAGATTTGCTAC+AGG + chr4.3:84180705-84180724 MS.gene33680:CDS 40.0%
CATTGGATTGATGCCAAAGC+TGG + chr4.3:84180747-84180766 MS.gene33680:CDS 45.0%
TTGGATTGATGCCAAAGCTG+GGG + chr4.3:84180749-84180768 MS.gene33680:CDS 45.0%
AACACAAGCATCCCCAGCTT+TGG - chr4.3:84180763-84180782 None:intergenic 50.0%
AGTCCACTACCACCAACAAC+AGG - chr4.3:84180690-84180709 None:intergenic 50.0%
GGAACAACTGCAACCGAAGT+TGG - chr4.3:84180420-84180439 None:intergenic 50.0%
GTTAGGGAGATGCCTGTTGT+TGG + chr4.3:84180675-84180694 MS.gene33680:CDS 50.0%
!! ATGCCTGTTGTTGGTGGTAG+TGG + chr4.3:84180684-84180703 MS.gene33680:CDS 50.0%
AGGGAGATGCCTGTTGTTGG+TGG + chr4.3:84180678-84180697 MS.gene33680:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 84180222 84180812 84180222 ID=MS.gene33680
chr4.3 mRNA 84180222 84180812 84180222 ID=MS.gene33680.t1;Parent=MS.gene33680
chr4.3 exon 84180222 84180812 84180222 ID=MS.gene33680.t1.exon1;Parent=MS.gene33680.t1
chr4.3 CDS 84180222 84180812 84180222 ID=cds.MS.gene33680.t1;Parent=MS.gene33680.t1
Gene Sequence

>MS.gene33680

ATGTCTTCCAAACATTTCCTCACTTTGTTCTTCTTCCTTCTCATCTCTTGTAACACACTCACTTCTTCAACATCGGAAAAAGAAGATACTTTTGATTTTGTTCGTCCAATAGATCGCAAGTTGTTAGGCCTAAACAAGAAGGAAAAGCTAAGTCATTTCAAATTATATTGGCATGACATAGTTAGTGGAAAAAATCCAACTTCGGTTGCAGTTGTTCCACCATCATCAAAAGTAAACTCAACCACTTTTTTTGGTTTAGTCAGCATGATTGACAACCCTTTAACTTTAGGACCCGAATTGAGTTCTAAACTTGTTGGTAGAGCTCAAGGATTCTATGCATCTGCTTCACTGGAAGAAATAGGTTTTCTTATGACAATGAATTTTGCTTTCATTGAAGGAAAGTATAATGGGAGTACTATTACTATCTTGGGGAGGAATCATGCTCGTAATAAGGTTAGGGAGATGCCTGTTGTTGGTGGTAGTGGACTTTTCAGATTTGCTACAGGATATGCTCAAGCTAGTACTCATTGGATTGATGCCAAAGCTGGGGATGCTTGTGTTGAGTACAATGTTTATGTTTTTCACTATTGA
Protein sequence

>MS.gene33680.t1

MSSKHFLTLFFFLLISCNTLTSSTSEKEDTFDFVRPIDRKLLGLNKKEKLSHFKLYWHDIVSGKNPTSVAVVPPSSKVNSTTFFGLVSMIDNPLTLGPELSSKLVGRAQGFYASASLEEIGFLMTMNFAFIEGKYNGSTITILGRNHARNKVREMPVVGGSGLFRFATGYAQASTHWIDAKAGDACVEYNVYVFHY