AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG030873

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030873 MtrunA17_Chr6g0457161 69.716 634 116 5 1 558 1 634 0.0 844
MsaG030873 MtrunA17_Chr6g0457221 86.143 433 36 1 151 559 303 735 0.0 748
MsaG030873 MtrunA17_Chr6g0457221 83.085 201 22 1 1 189 1 201 3.50e-109 342
MsaG030873 MtrunA17_Chr5g0402951 47.706 109 54 1 29 137 148 253 1.26e-24 105
MsaG030873 MtrunA17_Chr5g0402961 44.262 122 58 3 29 146 150 265 4.45e-24 104
MsaG030873 MtrunA17_Chr4g0045521 36.585 123 67 3 34 151 171 287 1.26e-17 84.0
MsaG030873 MtrunA17_Chr6g0479091 39.516 124 52 4 37 137 167 290 8.26e-17 81.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030873 AT5G38690.2 43.462 543 273 10 35 549 21 557 3.92e-137 410
MsaG030873 AT5G38690.1 43.462 543 273 10 35 549 21 557 3.92e-137 410
MsaG030873 AT1G67780.2 39.205 528 277 13 24 549 13 498 1.39e-100 314
MsaG030873 AT1G67780.1 39.205 528 277 13 24 549 13 498 1.39e-100 314
MsaG030873 AT1G67270.1 40.333 300 172 4 244 541 189 483 4.99e-55 193
MsaG030873 AT1G67270.1 64.035 114 41 0 24 137 5 118 6.91e-44 163
MsaG030873 AT2G23530.1 47.664 107 47 2 34 137 153 253 1.97e-23 104
MsaG030873 AT4G37110.3 33.166 199 104 4 9 195 66 247 1.39e-22 99.4
MsaG030873 AT4G37110.4 33.166 199 104 4 9 195 66 247 1.39e-22 99.4
MsaG030873 AT4G37110.2 38.889 144 71 2 9 152 148 274 1.14e-21 97.8
MsaG030873 AT4G37110.1 38.889 144 71 2 9 152 161 287 1.41e-21 97.8

Find 107 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAATGCGGAGTTCGTGTTAT+TGG 0.198381 6:+15608627 MsaT030873.1:CDS
CCCATTTCAGAATTTGCTTT+TGG 0.211564 6:-15612735 None:intergenic
ACTTGTGGCAGAACTTAATT+TGG 0.257589 6:-15610316 None:intergenic
AAAGAAGGCTTCTGAAAGTT+TGG 0.270786 6:+15610755 MsaT030873.1:CDS
TGCAAATGCCTCTGCACTTT+GGG 0.282113 6:-15610535 None:intergenic
TGGCAAGGCTTCCCAGTTCT+TGG 0.285176 6:-15610296 None:intergenic
TCAAAGTCAACAGTTTGATT+TGG 0.305707 6:-15613684 None:intergenic
ATAACAATGGTAAGGCATTC+TGG 0.307965 6:+15615144 MsaT030873.1:CDS
AATGAAGCGGGAAAACTTAA+AGG 0.322673 6:+15612617 MsaT030873.1:CDS
CCGTCCGATTGGCTTAATAA+AGG 0.323420 6:+15613939 MsaT030873.1:CDS
CGAATCTATGATTCTGCTAA+TGG 0.326535 6:+15608654 MsaT030873.1:CDS
ACCAAAAGCAAATTCTGAAA+TGG 0.333100 6:+15612734 MsaT030873.1:CDS
AAAGCTGACTTCAACCTTCT+AGG 0.339899 6:+15615417 MsaT030873.1:CDS
GCCACAAGTGCCTCTTGAAC+AGG 0.347791 6:+15610330 MsaT030873.1:CDS
AAAGAAAGCAGCAAAGTCTA+AGG 0.350593 6:+15614183 MsaT030873.1:CDS
TTTAAATTAAATATCCTAGA+AGG 0.358203 6:-15615431 None:intergenic
TTAGAATTCTGCAGAGTGTT+TGG 0.375943 6:+15613046 MsaT030873.1:CDS
CATAAGTGGATATTATGATT+TGG 0.388807 6:+15613962 MsaT030873.1:CDS
GCAAAAGCTGTTGTATCAAA+TGG 0.390668 6:+15614362 MsaT030873.1:CDS
ACATTTCCTCTAGGAGAGAT+TGG 0.391866 6:+15615389 MsaT030873.1:CDS
AATGCATTCCCAACATCTTC+TGG 0.397485 6:-15613016 None:intergenic
GAGAATCGAGCCGGAGTACT+TGG 0.407702 6:+15615121 MsaT030873.1:CDS
GCTTGTAAGAATCCAAGAAC+TGG 0.414838 6:+15610284 MsaT030873.1:CDS
AAGTCTTAAGCAAAAGTTGC+AGG 0.414891 6:+15614331 MsaT030873.1:CDS
GTTCATTCAGCCAAGGCATC+CGG 0.430095 6:+15610705 MsaT030873.1:CDS
GAAATTACATTACAAAGTTT+AGG 0.430136 6:-15612696 None:intergenic
TTGCAAATGCCTCTGCACTT+TGG 0.438657 6:-15610536 None:intergenic
AGGTAGAACTATTGAATGAT+TGG 0.447488 6:+15610507 MsaT030873.1:CDS
AGTTTGCACCAGAAGATGTT+GGG 0.451171 6:+15613008 MsaT030873.1:CDS
CCAAAAGCAAATTCTGAAAT+GGG 0.454442 6:+15612735 MsaT030873.1:CDS
TATACTACAGGAGGTTGTCT+TGG 0.454756 6:+15612515 MsaT030873.1:intron
TAGAAGGTTGAAGTCAGCTT+TGG 0.456528 6:-15615415 None:intergenic
TTTATTTGTGATGAAGCCTT+GGG 0.467960 6:+15614014 MsaT030873.1:CDS
GGAGTTAGTGCTTCAAAGGT+TGG 0.475203 6:+15612576 MsaT030873.1:CDS
GTCTAAGGTTTCTGAAGCTA+AGG 0.481278 6:+15614198 MsaT030873.1:CDS
CGAATGGAAAGAAATTGAAT+CGG 0.484997 6:+15608598 MsaT030873.1:CDS
TTGGGTCTATCAAGTGAACC+TGG 0.487801 6:+15612534 MsaT030873.1:CDS
TAATGGCAAAACTTGTCATC+AGG 0.489532 6:+15608671 MsaT030873.1:CDS
AGGTGGAGTTAGTGCTTCAA+AGG 0.490042 6:+15612572 MsaT030873.1:CDS
ATACTACAGGAGGTTGTCTT+GGG 0.492173 6:+15612516 MsaT030873.1:intron
CTGAAATGGGAACAAAAGTA+GGG 0.493063 6:+15612748 MsaT030873.1:CDS
TCTGAAATGGGAACAAAAGT+AGG 0.493797 6:+15612747 MsaT030873.1:CDS
CCTGGGAAAGAAAACTCCTT+AGG 0.498484 6:+15612552 MsaT030873.1:CDS
AGAGTTGAAACCGGATGCCT+TGG 0.498717 6:-15610715 None:intergenic
TGGCTTAATAAAGGCATAAG+TGG 0.500514 6:+15613948 MsaT030873.1:CDS
TATGCCTTTATTAAGCCAAT+CGG 0.504223 6:-15613943 None:intergenic
TAAAAGAATTTCCGTCCGAT+TGG 0.504368 6:+15613928 MsaT030873.1:CDS
TGCTGACACAGAGTTGAAAC+CGG 0.505301 6:-15610724 None:intergenic
ATATGGTGAGAAGGCAGAAG+AGG 0.508169 6:+15610487 MsaT030873.1:CDS
GGTTTCTGAAGCTAAGGAAA+AGG 0.511109 6:+15614204 MsaT030873.1:CDS
CTTTGTAATGTAATTTCAGA+GGG 0.513754 6:+15612702 MsaT030873.1:CDS
TTGATATATTCAGGAAGCTA+AGG 0.515389 6:+15614122 MsaT030873.1:intron
CACAAGAACTGAATGTGAAA+GGG 0.523171 6:+15608568 MsaT030873.1:CDS
GATTTGGAACTCAACCACTA+AGG 0.525815 6:-15613668 None:intergenic
TTCTCACTGCATCACAATGT+TGG 0.527421 6:-15615103 None:intergenic
GAGTTTGCACCAGAAGATGT+TGG 0.533090 6:+15613007 MsaT030873.1:CDS
GGAAGAAATTCCTTTCCCCT+TGG 0.535255 6:+15612956 MsaT030873.1:intron
GTCAGCAATGCTTAGAAAGA+AGG 0.535931 6:+15610740 MsaT030873.1:CDS
TGGCAGAACTTAATTTGGCA+AGG 0.536819 6:-15610311 None:intergenic
TTAATAAGTACATTTCCTCT+AGG 0.538395 6:+15615380 MsaT030873.1:CDS
TCACAAGAACTGAATGTGAA+AGG 0.539022 6:+15608567 MsaT030873.1:CDS
TGGAGCTGAGCAGAAGGATG+AGG 0.539326 6:+15615357 MsaT030873.1:CDS
CATCTCAGTGCCAAGGGGAA+AGG 0.541933 6:-15612966 None:intergenic
AGGATTACCTTGTAACATGT+AGG 0.543947 6:-15615195 None:intergenic
CTTCAACACCATCTTCATCA+TGG 0.545569 6:-15615312 None:intergenic
CTCATGGTTGAAAGCTGTAG+AGG 0.545669 6:+15613878 MsaT030873.1:CDS
ACCGAGTTGATTGAGGCAAA+AGG 0.546194 6:+15614455 MsaT030873.1:CDS
TAGGCTCTTGATGTCAAGAA+AGG 0.547393 6:+15613583 MsaT030873.1:intron
GTCATCAACACTGTTTCCAT+TGG 0.549516 6:-15612646 None:intergenic
TTTAGTCATCTCAGTGCCAA+GGG 0.551084 6:-15612972 None:intergenic
ATAAACCAAACCTGTTCAAG+AGG 0.552710 6:-15610340 None:intergenic
ACCTGTTCAAGAGGCACTTG+TGG 0.559250 6:-15610331 None:intergenic
ACGTGGACAAAACACCTTAG+TGG 0.560975 6:+15613654 MsaT030873.1:CDS
GTACTTGGATAACAATGGTA+AGG 0.570868 6:+15615136 MsaT030873.1:CDS
AGCTCATACCGAGTTGATTG+AGG 0.571551 6:+15614448 MsaT030873.1:CDS
TGTTTATGGAGCTGAGCAGA+AGG 0.575038 6:+15615351 MsaT030873.1:CDS
AACTTAAAGGAAATATCCAA+TGG 0.576316 6:+15612630 MsaT030873.1:CDS
CTTGTAAGAATCCAAGAACT+GGG 0.576666 6:+15610285 MsaT030873.1:CDS
AGAAAACCAAGAAAATGAAG+CGG 0.576898 6:+15612604 MsaT030873.1:CDS
TCATCCTTAACTGCTAGCAA+TGG 0.584110 6:+15613849 MsaT030873.1:CDS
AAAAGAGGTGAACAACCTAC+TGG 0.584751 6:+15610675 MsaT030873.1:CDS
TGAATTTAGATATGGTGAGA+AGG 0.586700 6:+15610478 MsaT030873.1:intron
GAAAACCAAGAAAATGAAGC+GGG 0.589175 6:+15612605 MsaT030873.1:CDS
GAATATGCCTACATGTTACA+AGG 0.590558 6:+15615188 MsaT030873.1:CDS
AAATACTTACATCGTGCCCA+AGG 0.591448 6:-15614030 None:intergenic
ACTTTGTAATGTAATTTCAG+AGG 0.597996 6:+15612701 MsaT030873.1:CDS
GGGAAAGAAAACTCCTTAGG+TGG 0.598078 6:+15612555 MsaT030873.1:CDS
TGATGCAGTGAGAATCGAGC+CGG 0.604885 6:+15615112 MsaT030873.1:CDS
CATCGTGTTCTGAAATTGAG+AGG 0.604942 6:-15614391 None:intergenic
ACAAAAGTAGGGGAGAATCA+TGG 0.609119 6:+15612759 MsaT030873.1:CDS
TGAAGCACTAACTCCACCTA+AGG 0.619141 6:-15612568 None:intergenic
CCATTGTTATCCAAGTACTC+CGG 0.619911 6:-15615131 None:intergenic
GTGAAAGGGAGTGATGCGAA+TGG 0.625227 6:+15608582 MsaT030873.1:CDS
ATGAAGATCCATGATGAAGA+TGG 0.630584 6:+15615304 MsaT030873.1:CDS
TGGGTCTATCAAGTGAACCT+GGG 0.644898 6:+15612535 MsaT030873.1:CDS
CCGGAGTACTTGGATAACAA+TGG 0.653215 6:+15615131 MsaT030873.1:CDS
CCTTTATTAAGCCAATCGGA+CGG 0.656626 6:-15613939 None:intergenic
GAATGAACTAGCATACCAGT+AGG 0.664052 6:-15610690 None:intergenic
ATTCTGCAGAGTGTTTGGAA+AGG 0.667054 6:+15613051 MsaT030873.1:CDS
TGATGTCAAGAAAGGAGAAG+CGG 0.668453 6:+15613591 MsaT030873.1:CDS
TGAAATGGGAACAAAAGTAG+GGG 0.670291 6:+15612749 MsaT030873.1:CDS
TATGCTAGTTCATTCAGCCA+AGG 0.672151 6:+15610698 MsaT030873.1:CDS
TGGTAACCAATCTCTCCTAG+AGG 0.673606 6:-15615395 None:intergenic
TTGAATCGGAACAATAAATG+CGG 0.678075 6:+15608612 MsaT030873.1:CDS
CGTAAGCAAAATTTGCGACG+TGG 0.687278 6:+15613637 MsaT030873.1:CDS
TGGATGTGCCCAAAGTGCAG+AGG 0.714972 6:+15610527 MsaT030873.1:CDS
TTAGTCATCTCAGTGCCAAG+GGG 0.716057 6:-15612971 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 15608549 15615438 15608549 ID=MsaG030873
Chr6 mRNA 15608549 15615438 15608549 ID=MsaT030873.1;Parent=MsaG030873
Chr6 exon 15608549 15608692 15608549 ID=MsaT030873.1.exon1;Parent=MsaT030873.1
Chr6 CDS 15608549 15608692 15608549 ID=cds.MsaT030873.1;Parent=MsaT030873.1
Chr6 exon 15610254 15610351 15610254 ID=MsaT030873.1.exon2;Parent=MsaT030873.1
Chr6 CDS 15610254 15610351 15610254 ID=cds.MsaT030873.1;Parent=MsaT030873.1
Chr6 exon 15610487 15610573 15610487 ID=MsaT030873.1.exon3;Parent=MsaT030873.1
Chr6 CDS 15610487 15610573 15610487 ID=cds.MsaT030873.1;Parent=MsaT030873.1
Chr6 exon 15610671 15610791 15610671 ID=MsaT030873.1.exon4;Parent=MsaT030873.1
Chr6 CDS 15610671 15610791 15610671 ID=cds.MsaT030873.1;Parent=MsaT030873.1
Chr6 exon 15612525 15612792 15612525 ID=MsaT030873.1.exon5;Parent=MsaT030873.1
Chr6 CDS 15612525 15612792 15612525 ID=cds.MsaT030873.1;Parent=MsaT030873.1
Chr6 exon 15612957 15613072 15612957 ID=MsaT030873.1.exon6;Parent=MsaT030873.1
Chr6 CDS 15612957 15613072 15612957 ID=cds.MsaT030873.1;Parent=MsaT030873.1
Chr6 exon 15613586 15613728 15613586 ID=MsaT030873.1.exon7;Parent=MsaT030873.1
Chr6 CDS 15613586 15613728 15613586 ID=cds.MsaT030873.1;Parent=MsaT030873.1
Chr6 exon 15613845 15614042 15613845 ID=MsaT030873.1.exon8;Parent=MsaT030873.1
Chr6 CDS 15613845 15614042 15613845 ID=cds.MsaT030873.1;Parent=MsaT030873.1
Chr6 exon 15614135 15614225 15614135 ID=MsaT030873.1.exon9;Parent=MsaT030873.1
Chr6 CDS 15614135 15614225 15614135 ID=cds.MsaT030873.1;Parent=MsaT030873.1
Chr6 exon 15614326 15614491 15614326 ID=MsaT030873.1.exon10;Parent=MsaT030873.1
Chr6 CDS 15614326 15614491 15614326 ID=cds.MsaT030873.1;Parent=MsaT030873.1
Chr6 exon 15615099 15615209 15615099 ID=MsaT030873.1.exon11;Parent=MsaT030873.1
Chr6 CDS 15615099 15615209 15615099 ID=cds.MsaT030873.1;Parent=MsaT030873.1
Chr6 exon 15615302 15615438 15615302 ID=MsaT030873.1.exon12;Parent=MsaT030873.1
Chr6 CDS 15615302 15615438 15615302 ID=cds.MsaT030873.1;Parent=MsaT030873.1
Gene Sequence

>MsaT030873.1

ATGGAAATCGATTCAGCTTCACAAGAACTGAATGTGAAAGGGAGTGATGCGAATGGAAAGAAATTGAATCGGAACAATAAATGCGGAGTTCGTGTTATTGGAAATCGAATCTATGATTCTGCTAATGGCAAAACTTGTCATCAGTGCCGGCAAAAAACAAGGGACTTTTCTGCTGCTTGTAAGAATCCAAGAACTGGGAAGCCTTGCCAAATTAAGTTCTGCCACAAGTGCCTCTTGAACAGATATGGTGAGAAGGCAGAAGAGGTAGAACTATTGAATGATTGGATGTGCCCAAAGTGCAGAGGCATTTGCAACTGCAGCATTTGCATGAAAAAAAGAGGTGAACAACCTACTGGTATGCTAGTTCATTCAGCCAAGGCATCCGGTTTCAACTCTGTGTCAGCAATGCTTAGAAAGAAGGCTTCTGAAAGTTTGGAATCGAACAATGCTGAGGTTGTCTTGGGTCTATCAAGTGAACCTGGGAAAGAAAACTCCTTAGGTGGAGTTAGTGCTTCAAAGGTTGGACGTGAGAAAACCAAGAAAATGAAGCGGGAAAACTTAAAGGAAATATCCAATGGAAACAGTGTTGATGACGCTTGCCAAAACAAGAAATCGAAAAAGCCTAAACTTTGTAATGTAATTTCAGAGGGTGAAGTGAAACCAAAAGCAAATTCTGAAATGGGAACAAAAGTAGGGGAGAATCATGGTATGATTTATAGAAGAAATTCCTTTCCCCTTGGCACTGAGATGACTAAAATATTAGACATTGAGTTTGCACCAGAAGATGTTGGGAATGCATTGCAGTTTTTAGAATTCTGCAGAGTGTTTGGAAAGGCTCTTGATGTCAAGAAAGGAGAAGCGGTAGCTGTTCTAAGAGCATTGATACGTAAGCAAAATTTGCGACGTGGACAAAACACCTTAGTGGTTGAGTTCCAAATCAAACTGTTGACTTTGATAGTATCTGATTCAGAAACTGAGTCTTCATCCTTAACTGCTAGCAATGGAAAAAACTCATGGTTGAAAGCTGTAGAGGATTTAATTACTGAATCTGACCGTGTACTAAAAGAATTTCCGTCCGATTGGCTTAATAAAGGCATAAGTGGATATTATGATTTGGACTTGTCCAAAAAGCTTATTCTTCTGAATTTTATTTGTGATGAAGCCTTGGGCACGATGAAGCTAAGGAATTATATTGATGATCAAAATGCAAGATTTGTTGAAGAAAAGAAAGCAGCAAAGTCTAAGGTTTCTGAAGCTAAGGAAAAGGAAAGAAGTCTTAAGCAAAAGTTGCAGGATGAGATTGCAAAAGCTGTTGTATCAAATGGAGCTAGCCTCTCAATTTCAGAACACGATGCTCTTCTTGCAAAGATAAAAAGTGAAACAGCTAAAGCTCATACCGAGTTGATTGAGGCAAAAGGCACAATTCCTAAACGGAACCAACATTGTGATGCAGTGAGAATCGAGCCGGAGTACTTGGATAACAATGGTAAGGCATTCTGGAAACTAAGAAGCTGTAATGATGAATATGCCTACATGTTACAAGATATGAAGATCCATGATGAAGATGGTGTTGAAGTTGATGAAAAATGGTTTGTTTATGGAGCTGAGCAGAAGGATGAGGTTAATAAGTACATTTCCTCTAGGAGAGATTGGTTACCAAAGCTGACTTCAACCTTCTAG
Protein sequence

>MsaT030873.1

MEIDSASQELNVKGSDANGKKLNRNNKCGVRVIGNRIYDSANGKTCHQCRQKTRDFSAACKNPRTGKPCQIKFCHKCLLNRYGEKAEEVELLNDWMCPKCRGICNCSICMKKRGEQPTGMLVHSAKASGFNSVSAMLRKKASESLESNNAEVVLGLSSEPGKENSLGGVSASKVGREKTKKMKRENLKEISNGNSVDDACQNKKSKKPKLCNVISEGEVKPKANSEMGTKVGENHGMIYRRNSFPLGTEMTKILDIEFAPEDVGNALQFLEFCRVFGKALDVKKGEAVAVLRALIRKQNLRRGQNTLVVEFQIKLLTLIVSDSETESSSLTASNGKNSWLKAVEDLITESDRVLKEFPSDWLNKGISGYYDLDLSKKLILLNFICDEALGTMKLRNYIDDQNARFVEEKKAAKSKVSEAKEKERSLKQKLQDEIAKAVVSNGASLSISEHDALLAKIKSETAKAHTELIEAKGTIPKRNQHCDAVRIEPEYLDNNGKAFWKLRSCNDEYAYMLQDMKIHDEDGVEVDEKWFVYGAEQKDEVNKYISSRRDWLPKLTSTF*