AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013114


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013114 MtrunA17_Chr3g0092221 84.841 409 38 3 29 419 1 403 0.0 697
MsaG013114 MtrunA17_Chr3g0092171 62.531 403 101 6 40 419 131 506 1.38e-169 484
MsaG013114 MtrunA17_Chr3g0088521 59.113 406 84 12 40 367 93 494 1.65e-136 408
MsaG013114 MtrunA17_Chr3g0088521 40.299 134 51 4 314 418 548 681 1.07e-17 85.5
MsaG013114 MtrunA17_Chr7g0257831 47.044 406 131 13 40 367 95 494 1.35e-97 307
MsaG013114 MtrunA17_Chr7g0257831 61.224 49 19 0 370 418 627 675 5.82e-13 70.9
MsaG013114 MtrunA17_Chr1g0171151 41.237 388 162 10 40 362 80 466 3.19e-86 274
MsaG013114 MtrunA17_Chr5g0437251 41.813 342 135 12 33 338 85 398 2.11e-70 234
MsaG013114 MtrunA17_Chr5g0430211 44.706 255 108 6 137 358 197 451 2.51e-67 227
MsaG013114 MtrunA17_Chr1g0187591 66.187 139 45 1 147 283 206 344 4.28e-64 217
MsaG013114 MtrunA17_Chr3g0113651 39.384 292 143 5 70 353 75 340 1.34e-62 210
MsaG013114 MtrunA17_Chr8g0389561 63.559 118 43 0 164 281 77 194 8.83e-50 172
MsaG013114 MtrunA17_Chr6g0487481 68.224 107 34 0 164 270 99 205 1.42e-48 169
MsaG013114 MtrunA17_Chr3g0105141 57.600 125 50 2 149 270 15 139 7.83e-47 158
MsaG013114 MtrunA17_Chr3g0135351 38.113 265 122 12 163 419 48 278 3.51e-46 160
MsaG013114 MtrunA17_Chr2g0324781 60.360 111 44 0 168 278 77 187 7.29e-44 158
MsaG013114 MtrunA17_Chr3g0105101 48.387 155 53 2 147 299 166 295 9.01e-44 157
MsaG013114 MtrunA17_Chr4g0040391 58.879 107 44 0 164 270 56 162 1.41e-42 152
MsaG013114 MtrunA17_Chr3g0105131 54.815 135 45 2 147 279 157 277 2.85e-42 155
MsaG013114 MtrunA17_Chr3g0105121 44.828 174 85 3 167 339 8 171 8.98e-42 150
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013114 AT2G41900.1 49.711 346 119 11 40 338 96 433 4.92e-89 285
MsaG013114 AT5G12850.1 45.584 351 137 10 40 338 89 437 1.49e-79 259
MsaG013114 AT5G58620.1 54.167 216 78 6 147 346 186 396 1.17e-70 234
MsaG013114 AT2G40140.2 56.000 175 72 3 151 321 195 368 7.56e-63 213
MsaG013114 AT2G40140.1 56.000 175 72 3 151 321 195 368 7.56e-63 213
MsaG013114 AT3G55980.1 41.772 316 155 10 40 335 78 384 9.30e-63 212
MsaG013114 AT3G55980.2 41.772 316 155 10 40 335 145 451 3.96e-62 212
MsaG013114 AT2G25900.2 66.355 107 36 0 164 270 86 192 1.10e-49 171
MsaG013114 AT2G25900.1 66.355 107 36 0 164 270 86 192 1.10e-49 171
MsaG013114 AT1G03790.1 52.174 161 71 3 127 283 43 201 1.11e-46 165
MsaG013114 AT4G29190.1 56.061 132 57 1 150 280 60 191 1.16e-46 164
MsaG013114 AT2G19810.1 63.551 107 39 0 164 270 74 180 1.76e-45 161
MsaG013114 AT5G07500.1 56.897 116 50 0 155 270 39 154 2.13e-44 155
MsaG013114 AT5G44260.1 58.871 124 48 2 148 270 42 163 6.76e-43 155

Find 100 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGTTAACTCCTGGTCTAAA+TGG 0.200828 3:-41049926 MsaT013114.1:CDS
CCTTTATCATCTGCTGAAAA+TGG 0.235234 3:-41050668 MsaT013114.1:CDS
TGGCCAGCTCTTCACTTTCC+AGG 0.289536 3:-41050047 MsaT013114.1:CDS
TTCTCATAAGGATGGTAAAA+AGG 0.298159 3:+41050458 None:intergenic
TCTAAATGGGGTTCCAATAC+TGG 0.304870 3:-41049912 MsaT013114.1:CDS
TCTTGGAACATATTTCTTCC+TGG 0.335210 3:+41050029 None:intergenic
ATCAAAGTCATTTCCGTTAA+CGG 0.344707 3:+41049875 None:intergenic
CATTTAGACCAGGAGTTAAC+AGG 0.344738 3:+41049927 None:intergenic
TTATCACCTGGGGCTGATAT+CGG 0.348736 3:-41050710 MsaT013114.1:CDS
CACTGAAATGGCACCAGGAC+GGG 0.356573 3:+41049956 None:intergenic
GATCCAGTGGACACATATAT+TGG 0.363755 3:+41050218 None:intergenic
TATCTTAGTTGAGAATAGAT+TGG 0.376314 3:+41049787 None:intergenic
CCGTTTGCATATGGAGATAA+AGG 0.378114 3:+41050092 None:intergenic
GTTAAGGCTGCTGATGCTGC+TGG 0.383409 3:-41050812 MsaT013114.1:CDS
CCAATACTGGAAAACTTGAT+TGG 0.395651 3:-41049899 MsaT013114.1:CDS
AGCTGTAGGCGAACTTTCTA+AGG 0.397207 3:+41050420 None:intergenic
TGTTAACTCCTGGTCTAAAT+GGG 0.401435 3:-41049925 MsaT013114.1:CDS
AGGAGCAGATGCAGCTGATC+GGG 0.402058 3:+41050181 None:intergenic
TGATGCTGATTCAAGTGGTT+TGG 0.404621 3:-41050834 MsaT013114.1:CDS
TCATCTTCATCTGCGGTAGA+AGG 0.405205 3:-41050986 MsaT013114.1:CDS
ACTTTAAATGTTTCACCGTC+AGG 0.408929 3:-41050881 MsaT013114.1:CDS
TTCACAATTTCGAGCTTATG+AGG 0.414701 3:+41050755 None:intergenic
AGAATGGTGCGATACCGATC+TGG 0.414981 3:+41050308 None:intergenic
GGAGAGATGCCGTTTGCATA+TGG 0.429891 3:+41050083 None:intergenic
GTGATGAGCCTGATCTATCT+TGG 0.430311 3:-41049812 MsaT013114.1:CDS
AAACTTGATTGGTCCGTTAA+CGG 0.434602 3:-41049888 MsaT013114.1:CDS
ATTGTGAAAACAAGTCTTGA+AGG 0.440368 3:-41050740 MsaT013114.1:CDS
GCAGCCATGTCCATGACATT+AGG 0.442851 3:+41050161 None:intergenic
TCTACACTAGGAAGTGCAAT+TGG 0.451987 3:+41050572 None:intergenic
CTCCTTCGAGCATTCTCATA+AGG 0.454231 3:+41050446 None:intergenic
TGATTCAAGTGGTTTGGTTA+AGG 0.456096 3:-41050828 MsaT013114.1:CDS
TCAATCGTGGATGCTTCCTA+TGG 0.460445 3:-41050914 MsaT013114.1:CDS
GGAGATAAAGGCAGTGCAAA+AGG 0.462149 3:+41050104 None:intergenic
ACAGCTGTGTCGGTAAACTT+TGG 0.463128 3:+41050623 None:intergenic
AACAGGTCGGCTCACTGAAA+TGG 0.465830 3:+41049944 None:intergenic
ATCGTGCATACTCTCATGAT+TGG 0.468172 3:-41050490 MsaT013114.1:CDS
TGTTTCTCACAGCCCCGTCC+TGG 0.471928 3:-41049969 MsaT013114.1:CDS
GAAAACAAGTCTTGAAGGAC+TGG 0.473587 3:-41050735 MsaT013114.1:CDS
GCTGGCCAAGCATTATTTGA+AGG 0.478194 3:+41050062 None:intergenic
AGTACCATCTTTGCAGAGAA+TGG 0.480755 3:+41050292 None:intergenic
GATGAAGATGACGAAATTGA+AGG 0.481890 3:+41050998 None:intergenic
TGATGAGCCTGATCTATCTT+GGG 0.482022 3:-41049811 MsaT013114.1:CDS
AATATGTTCCAAGACATTCA+TGG 0.483668 3:-41050020 MsaT013114.1:CDS
CGCACCATTCTCTGCAAAGA+TGG 0.486710 3:-41050296 MsaT013114.1:CDS
ATTGTTTCCATGCTCAAAAG+AGG 0.495896 3:+41049836 None:intergenic
CTTCCTGGAAAGTGAAGAGC+TGG 0.497956 3:+41050044 None:intergenic
TTGGTAGCAAACCACGATAA+AGG 0.498466 3:+41050129 None:intergenic
ACTGAAATGGCACCAGGACG+GGG 0.501239 3:+41049957 None:intergenic
CTCATGGACTATTCGAGACC+TGG 0.504397 3:-41050337 MsaT013114.1:CDS
GATGCAGCTGATCGGGGTAA+AGG 0.505671 3:+41050188 None:intergenic
TCACCGTCAGGTCCAGAGGC+TGG 0.513881 3:-41050869 MsaT013114.1:CDS
ATACCGATCTGGGTGTAGCC+AGG 0.517913 3:+41050319 None:intergenic
GATAATTGTGAATTTGCTCA+TGG 0.522724 3:-41050353 MsaT013114.1:CDS
GATTGGACCCAAGATAGATC+AGG 0.523337 3:+41049804 None:intergenic
GCAGCATTTACACCAGCCTC+TGG 0.529557 3:+41050857 None:intergenic
TTTGGAGCCACAGGAGAGGA+TGG 0.530352 3:+41050641 None:intergenic
CCTTTATCTCCATATGCAAA+CGG 0.530866 3:-41050092 MsaT013114.1:CDS
TAAAGTATCAATACTCCCAT+AGG 0.532097 3:+41050898 None:intergenic
CGGCTCACTGAAATGGCACC+AGG 0.533049 3:+41049951 None:intergenic
AAAGGCAGTGCAAAAGGAGT+TGG 0.533658 3:+41050110 None:intergenic
CGTCCAATATATGTGTCCAC+TGG 0.540039 3:-41050221 MsaT013114.1:CDS
GCTGCTGACCATGAATGTCT+TGG 0.541101 3:+41050012 None:intergenic
TCGGTAAACTTTGGAGCCAC+AGG 0.542025 3:+41050632 None:intergenic
TCAGTTAATTGAAAGATGTA+CGG 0.542243 3:-41051043 None:intergenic
TAGGAGCAGATGCAGCTGAT+CGG 0.547990 3:+41050180 None:intergenic
TCTCTCCTTCAAATAATGCT+TGG 0.548783 3:-41050067 MsaT013114.1:CDS
GAATGGTGCGATACCGATCT+GGG 0.555264 3:+41050309 None:intergenic
GATAAAGGGGCAGCTGAATG+AGG 0.558379 3:+41050683 None:intergenic
CAATCGTGGATGCTTCCTAT+GGG 0.569230 3:-41050913 MsaT013114.1:CDS
TGAGCCGACCTGTTAACTCC+TGG 0.570712 3:-41049935 MsaT013114.1:CDS
TCACTGAAATGGCACCAGGA+CGG 0.575540 3:+41049955 None:intergenic
AGGGCATGGCACACAGCTGT+AGG 0.579245 3:+41050406 None:intergenic
TTCGAGCATTCTCATAAGGA+TGG 0.587046 3:+41050450 None:intergenic
TGCATCTGCTCCTAATGTCA+TGG 0.589356 3:-41050171 MsaT013114.1:CDS
TGGTACTAGTTGTGACCGAA+AGG 0.594642 3:-41050276 MsaT013114.1:CDS
TGTAGAATTAACAGCTGTGT+CGG 0.595082 3:+41050613 None:intergenic
CCACGATTGAATCCGCCATA+CGG 0.597617 3:+41050927 None:intergenic
TGCTCCTAATGTCATGGACA+TGG 0.600640 3:-41050165 MsaT013114.1:CDS
GCTGCTGATGCTGATTCAAG+TGG 0.611062 3:-41050839 MsaT013114.1:CDS
ATTGGAACCCCATTTAGACC+AGG 0.611618 3:+41049917 None:intergenic
AGACCTGGCTACACCCAGAT+CGG 0.613127 3:-41050322 MsaT013114.1:CDS
TACATGCTGCTTTCTACACT+AGG 0.613651 3:+41050560 None:intergenic
TGTTTCACCGTCAGGTCCAG+AGG 0.618609 3:-41050873 MsaT013114.1:CDS
ACACCAGCCTCTGGACCTGA+CGG 0.622231 3:+41050866 None:intergenic
CCGTATGGCGGATTCAATCG+TGG 0.626745 3:-41050927 MsaT013114.1:CDS
TGGATCTCCATCCTCTCCTG+TGG 0.628993 3:-41050648 MsaT013114.1:CDS
AATTTCGTCATCTTCATCTG+CGG 0.629046 3:-41050993 MsaT013114.1:CDS
TAAAGGAACAGCAGATCCAG+TGG 0.630564 3:+41050205 None:intergenic
AGTATGCACGATGACAAAGA+AGG 0.634741 3:+41050501 None:intergenic
AAATCTAACTGTCCGTATGG+CGG 0.639120 3:-41050939 MsaT013114.1:CDS
ATCCTTATGAGAATGCTCGA+AGG 0.652618 3:-41050448 MsaT013114.1:CDS
GGACAACCGATATCAGCCCC+AGG 0.654655 3:+41050704 None:intergenic
GTTAATTGAAAGATGTACGG+TGG 0.654833 3:-41051040 None:intergenic
GGAGCAGATGCAGCTGATCG+GGG 0.658028 3:+41050182 None:intergenic
GCTGCTACGAGCCTTTATCG+TGG 0.663368 3:-41050140 MsaT013114.1:CDS
AAACTTTGGAGCCACAGGAG+AGG 0.663839 3:+41050637 None:intergenic
GTTAACTCCTGGTCTAAATG+GGG 0.665213 3:-41049924 MsaT013114.1:CDS
TGGCGCTGATATCAATTGTG+TGG 0.679251 3:-41050792 MsaT013114.1:CDS
ATACATGCGAAATTCATCTG+TGG 0.700612 3:+41050535 None:intergenic
TAGACCAGGAGTTAACAGGT+CGG 0.724329 3:+41049931 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 41049791 41051050 41049791 ID=MsaG013114
Chr3 mRNA 41049791 41051050 41049791 ID=MsaT013114.1;Parent=MsaG013114
Chr3 exon 41049791 41051050 41049791 ID=MsaT013114.1.exon1;Parent=MsaT013114.1
Chr3 CDS 41049791 41051050 41049791 ID=cds.MsaT013114.1;Parent=MsaT013114.1
Gene Sequence

>MsaT013114.1

ATGTACGGTGGTCCTAACAAATCAAAATCTCCTTCAATTTCGTCATCTTCATCTGCGGTAGAAGGTTCAAATATCGTCAATGACATGAAAAATCTAACTGTCCGTATGGCGGATTCAATCGTGGATGCTTCCTATGGGAGTATTGATACTTTAAATGTTTCACCGTCAGGTCCAGAGGCTGGTGTAAATGCTGCTGATGCTGATTCAAGTGGTTTGGTTAAGGCTGCTGATGCTGCTGGCGCTGATATCAATTGTGTGGATGTTAATGTTGTTCCTCATAAGCTCGAAATTGTGAAAACAAGTCTTGAAGGACTGGTTTTATCACCTGGGGCTGATATCGGTTGTCCTCATTCAGCTGCCCCTTTATCATCTGCTGAAAATGGATCTCCATCCTCTCCTGTGGCTCCAAAGTTTACCGACACAGCTGTTAATTCTACATCAGAAAAGAAAGAATATCCAATTGCACTTCCTAGTGTAGAAAGCAGCATGTACGCCACAGATGAATTTCGCATGTATTCGTTCAAGATCCTTCTTTGTCATCGTGCATACTCTCATGATTGGACCGAGTGTCCTTTTTACCATCCTTATGAGAATGCTCGAAGGAGAGACCTTAGAAAGTTCGCCTACAGCTGTGTGCCATGCCCTGATTTTAAAAAAGGGGATTGCAAACGTGCAGATAATTGTGAATTTGCTCATGGACTATTCGAGACCTGGCTACACCCAGATCGGTATCGCACCATTCTCTGCAAAGATGGTACTAGTTGTGACCGAAAGGTGTGCTTTTTTGCACATGTAGCTGAAGAGCTGCGTCCAATATATGTGTCCACTGGATCTGCTGTTCCTTTACCCCGATCAGCTGCATCTGCTCCTAATGTCATGGACATGGCTGCTGCTACGAGCCTTTATCGTGGTTTGCTACCAACTCCTTTTGCACTGCCTTTATCTCCATATGCAAACGGCATCTCTCCTTCAAATAATGCTTGGCCAGCTCTTCACTTTCCAGGAAGAAATATGTTCCAAGACATTCATGGTCAGCAGCATATGCTAAACGACATAAGCTGTTTCTCACAGCCCCGTCCTGGTGCCATTTCAGTGAGCCGACCTGTTAACTCCTGGTCTAAATGGGGTTCCAATACTGGAAAACTTGATTGGTCCGTTAACGGAAATGACTTTGATCGATCGCAACGATATACCTCTTTTGAGCATGGAAACAATGGTGATGAGCCTGATCTATCTTGGGTCCAATCTATTCTCAACTAA

Protein sequence

>MsaT013114.1

MYGGPNKSKSPSISSSSSAVEGSNIVNDMKNLTVRMADSIVDASYGSIDTLNVSPSGPEAGVNAADADSSGLVKAADAAGADINCVDVNVVPHKLEIVKTSLEGLVLSPGADIGCPHSAAPLSSAENGSPSSPVAPKFTDTAVNSTSEKKEYPIALPSVESSMYATDEFRMYSFKILLCHRAYSHDWTECPFYHPYENARRRDLRKFAYSCVPCPDFKKGDCKRADNCEFAHGLFETWLHPDRYRTILCKDGTSCDRKVCFFAHVAEELRPIYVSTGSAVPLPRSAASAPNVMDMAAATSLYRGLLPTPFALPLSPYANGISPSNNAWPALHFPGRNMFQDIHGQQHMLNDISCFSQPRPGAISVSRPVNSWSKWGSNTGKLDWSVNGNDFDRSQRYTSFEHGNNGDEPDLSWVQSILN*