AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044248

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044248 MtrunA17_Chr8g0372101 95.717 537 15 1 49 585 29 557 0.0 1033
MsaG044248 MtrunA17_Chr1g0153161 37.154 253 115 5 51 297 30 244 9.66e-36 139
MsaG044248 MtrunA17_Chr1g0153161 45.000 100 52 2 489 585 307 406 1.24e-17 85.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044248 AT5G66270.1 30.019 523 242 17 53 566 20 427 5.90e-41 154
MsaG044248 AT1G19860.1 37.091 275 130 8 49 316 26 264 2.27e-39 149
MsaG044248 AT1G19860.1 35.526 152 77 7 454 585 260 410 1.70e-14 76.3
MsaG044248 AT1G19860.2 37.091 275 130 8 49 316 28 266 2.31e-39 149
MsaG044248 AT1G19860.2 35.526 152 77 7 454 585 262 412 1.34e-14 76.6
MsaG044248 AT3G51180.1 29.240 513 266 14 79 564 53 495 5.94e-39 150

Find 152 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCACATTCCTAAGATAAAA+TGG 0.151328 8:-57752840 MsaT044248.1:CDS
GCCTCAGCCAGATTCATTTC+TGG 0.195716 8:-57751602 MsaT044248.1:CDS
CCAGATTCATTTCTGGCATC+TGG 0.226020 8:-57751595 MsaT044248.1:CDS
ATGTAGCCCTTCTGTTTCTT+TGG 0.231921 8:-57752439 MsaT044248.1:intron
TCCATGGTTACACTCACTTC+TGG 0.273989 8:-57751994 MsaT044248.1:CDS
CACTCGATGTGGCAGCTTCT+AGG 0.275678 8:-57751930 MsaT044248.1:CDS
AGTTTGTGTTCAGTCCTAAT+TGG 0.311809 8:-57752642 MsaT044248.1:CDS
ACAGTTCCATTGCCTCCTTC+TGG 0.313266 8:-57751526 MsaT044248.1:CDS
AAGAGGGCATTCTCTGATTA+TGG 0.315359 8:-57754211 MsaT044248.1:CDS
CCAGCTGCAACTAGCCAATT+AGG 0.324873 8:+57752628 None:intergenic
GATGAAACTGATGGAATTGC+AGG 0.327045 8:+57751868 None:intergenic
GGCACAAAACATCGTTGTTT+TGG 0.327550 8:-57754145 MsaT044248.1:intron
AGGAGGAATGGCAGAGGGTC+GGG 0.328507 8:+57752540 None:intergenic
TATGTGCCAATTTCATATCT+TGG 0.331995 8:+57751323 None:intergenic
AACAGGATTAGAACATTTGC+TGG 0.336332 8:+57754259 None:intergenic
TTCACTGCTGCTGCTAATTT+AGG 0.340907 8:+57752330 None:intergenic
TAACTTCCAAGATATGAAAT+TGG 0.355285 8:-57751329 MsaT044248.1:CDS
CAAGACTGTCTTGTAAATTC+AGG 0.362078 8:+57752968 None:intergenic
AAGCCTTATCAAACAAGTTC+AGG 0.368435 8:-57751457 MsaT044248.1:CDS
GGAATTACGGTCTGAACTAT+TGG 0.371884 8:+57752251 None:intergenic
TCCTCCTCGATGGGAATGAT+TGG 0.373518 8:+57752372 None:intergenic
AGCAGGGGTATCTTCTAGTT+TGG 0.377653 8:-57752190 MsaT044248.1:CDS
AGCCCACGCATACTGAGTTT+TGG 0.378102 8:-57754166 MsaT044248.1:CDS
AATTGAACCTTTGATTGGTT+AGG 0.381590 8:+57752865 None:intergenic
GATATTGGTTTACTGGATAC+TGG 0.382154 8:+57751730 None:intergenic
AATGGAGCTGACGCAGTTGC+TGG 0.385981 8:+57751760 None:intergenic
ATTGAATACGATGGAATTGC+AGG 0.387770 8:+57751805 None:intergenic
AAAATTATTGTTGACAGGTC+TGG 0.391698 8:+57751663 None:intergenic
CAGATTCATTTCTGGCATCT+GGG 0.392898 8:-57751594 MsaT044248.1:CDS
TCATCTTTCAATCCTACATC+TGG 0.397689 8:-57751850 MsaT044248.1:CDS
GATAAGCTGGACTCACAAAT+AGG 0.397813 8:-57751364 MsaT044248.1:CDS
GCAAGCAGGCTTAATTGATA+TGG 0.398979 8:-57752112 MsaT044248.1:CDS
ATTGAACCTTTGATTGGTTA+GGG 0.402352 8:+57752866 None:intergenic
AAATTATTGTTGACAGGTCT+GGG 0.408470 8:+57751664 None:intergenic
GAATCTATCGATTTACCTCC+TGG 0.411481 8:-57752907 MsaT044248.1:CDS
CAGTTCCATTGCCTCCTTCT+GGG 0.414655 8:-57751525 MsaT044248.1:CDS
GCTCGTCTAATGCCCTTAGC+AGG 0.429377 8:-57752207 MsaT044248.1:CDS
GCTGAAACATCATGCTGAAA+GGG 0.429786 8:+57751211 None:intergenic
GAACTATTGGAAGTTGTTGC+CGG 0.432083 8:+57752264 None:intergenic
GCAGGAGCAAACAGAGTAGT+TGG 0.444997 8:+57751823 None:intergenic
CCTAATTGGCTAGTTGCAGC+TGG 0.446302 8:-57752628 MsaT044248.1:CDS
GAACCTGAACTTGTTTGATA+AGG 0.453047 8:+57751454 None:intergenic
CTGCACCATGTTGCCTAATG+AGG 0.454748 8:+57751395 None:intergenic
TCGGGAGCTGGTAACTTCCT+AGG 0.455316 8:-57751184 MsaT044248.1:CDS
TGCAGATGGGCAAGATAAGC+TGG 0.457381 8:-57751377 MsaT044248.1:CDS
CCAGATGCCAGAAATGAATC+TGG 0.461127 8:+57751595 None:intergenic
TGCAGCTGGGCAAGAAAGTA+GGG 0.463524 8:-57752614 MsaT044248.1:CDS
TTGACAGGTCTGGGCATATG+AGG 0.463719 8:+57751673 None:intergenic
TTGCAGCTGGGCAAGAAAGT+AGG 0.464157 8:-57752615 MsaT044248.1:CDS
TTGGCACATAACAATAATCA+AGG 0.464527 8:-57751310 MsaT044248.1:CDS
AAATTCTGTGGCTGAACATT+GGG 0.466364 8:+57752300 None:intergenic
TAAGGCTTTGTACTAGCAAT+GGG 0.468145 8:+57751472 None:intergenic
CCACATTCCTAAGATAAAAT+GGG 0.468472 8:-57752839 MsaT044248.1:CDS
CCTCCTCGATGGGAATGATT+GGG 0.470351 8:+57752373 None:intergenic
GGAGGAATGGCAGAGGGTCG+GGG 0.470549 8:+57752541 None:intergenic
ATCATGCTGAAAGGGGCAAT+CGG 0.471157 8:+57751219 None:intergenic
ATGCCCTCTTTGCTTTCAGC+CGG 0.474004 8:+57754224 None:intergenic
CGGGAGCTGGTAACTTCCTA+GGG 0.483524 8:-57751183 MsaT044248.1:CDS
AGGTTCAGCATCTGCTGTAA+AGG 0.486010 8:-57751437 MsaT044248.1:CDS
ATTAGGCAACATGGTGCAGA+TGG 0.486112 8:-57751391 MsaT044248.1:CDS
CATGATGTTTCAGCTGAGTC+GGG 0.488953 8:-57751202 MsaT044248.1:CDS
GGGAGAATTGAACCTTTGAT+TGG 0.489898 8:+57752860 None:intergenic
ATAAGGCTTTGTACTAGCAA+TGG 0.495719 8:+57751471 None:intergenic
GAGTGTAACCATGGAATTTG+AGG 0.498728 8:+57752002 None:intergenic
GCATGATGTTTCAGCTGAGT+CGG 0.505056 8:-57751203 MsaT044248.1:CDS
AGCTGAAACATCATGCTGAA+AGG 0.506833 8:+57751210 None:intergenic
AGCTGCAGCCTCTGAAGTTG+TGG 0.508132 8:-57752157 MsaT044248.1:CDS
CTGCGTCAGCTCCATTGTCT+AGG 0.513217 8:-57751753 MsaT044248.1:CDS
GGCATATGAGGTTCAGATGT+AGG 0.520582 8:+57751685 None:intergenic
CAGCATAAAATTACCGGGAG+AGG 0.530765 8:+57752811 None:intergenic
CATAGACTCTTCCTCCTCGA+TGG 0.531139 8:+57752362 None:intergenic
ATGTGAAAATTATTGTTGAC+AGG 0.534240 8:+57751658 None:intergenic
CAAATTCTGTGGCTGAACAT+TGG 0.535118 8:+57752299 None:intergenic
GTTTCAGCTGAGTCGGGAGC+TGG 0.537366 8:-57751196 MsaT044248.1:CDS
TAGGAGGAATGGCAGAGGGT+CGG 0.538274 8:+57752539 None:intergenic
AGCATAAAATTACCGGGAGA+GGG 0.539008 8:+57752812 None:intergenic
TGCCCTCTTTGCTTTCAGCC+GGG 0.539907 8:+57754225 None:intergenic
GGACGAACTTGCAGTGGTGG+CGG 0.542355 8:+57752023 None:intergenic
GAAGATTACCCGTCAAAAGT+TGG 0.544720 8:-57752991 MsaT044248.1:intron
TGTTTCTTTGGATGTAGAAG+AGG 0.545703 8:-57752427 MsaT044248.1:CDS
GCAAGAAAGTAGGGAGAAAG+AGG 0.547738 8:-57752605 MsaT044248.1:CDS
GAGCATCTGAGGAGACAGTA+CGG 0.548380 8:+57752226 None:intergenic
TGAGGACGAACTTGCAGTGG+TGG 0.548748 8:+57752020 None:intergenic
ACTAGAAGATACCCCTGCTA+AGG 0.549081 8:+57752194 None:intergenic
GAGAATTTGATCAATGAGCA+TGG 0.549452 8:-57752051 MsaT044248.1:CDS
AAAATGGGAATGCCCTCTCC+CGG 0.549517 8:-57752824 MsaT044248.1:intron
AACTCACACACTAGTTCTGT+GGG 0.551967 8:-57751907 MsaT044248.1:CDS
AGCATCTGAGGAGACAGTAC+GGG 0.553864 8:+57752227 None:intergenic
TCTACATCCAAAGAAACAGA+AGG 0.555893 8:+57752432 None:intergenic
GTAGTTGGCTTACCAGATGT+AGG 0.556554 8:+57751838 None:intergenic
GAACTCACACACTAGTTCTG+TGG 0.560378 8:-57751908 MsaT044248.1:CDS
GACCCTCTGCCATTCCTCCT+AGG 0.562137 8:-57752537 MsaT044248.1:intron
GTGCCAAAACTCAGTATGCG+TGG 0.563539 8:+57754163 None:intergenic
CTCGTCTAATGCCCTTAGCA+GGG 0.566088 8:-57752206 MsaT044248.1:CDS
GCATTTACTTTAATAGCTCG+AGG 0.566113 8:-57751258 MsaT044248.1:CDS
AAGTTCGTCCTCAAATTCCA+TGG 0.568579 8:-57752010 MsaT044248.1:CDS
TTACCTCCTGGGTTCGAAAG+CGG 0.570253 8:-57752895 MsaT044248.1:CDS
CATTTACTTTAATAGCTCGA+GGG 0.571255 8:-57751257 MsaT044248.1:CDS
CATTCTCTGATTATGGAAGA+AGG 0.572039 8:-57754204 MsaT044248.1:CDS
CTAGAAGATACCCCTGCTAA+GGG 0.572585 8:+57752195 None:intergenic
ATAGACTCTTCCTCCTCGAT+GGG 0.574122 8:+57752363 None:intergenic
AATCTATCGATTTACCTCCT+GGG 0.575153 8:-57752906 MsaT044248.1:CDS
GATGTAAACAAAGGAACTGA+AGG 0.576142 8:+57751955 None:intergenic
ACAAGACAGTCTTGAAGCAA+AGG 0.576393 8:-57752959 MsaT044248.1:CDS
AAATGACCGCTTTCGAACCC+AGG 0.580431 8:+57752889 None:intergenic
CTGGATACTGGCCTAGACAA+TGG 0.583361 8:+57751742 None:intergenic
TGCCAAAACTCAGTATGCGT+GGG 0.583544 8:+57754164 None:intergenic
AGATTCATTTCTGGCATCTG+GGG 0.584140 8:-57751593 MsaT044248.1:CDS
GGGCATTAGACGAGCATCTG+AGG 0.586309 8:+57752215 None:intergenic
TCATTTCCCTAACCAATCAA+AGG 0.586642 8:-57752872 MsaT044248.1:CDS
TTGCTCATTACTCTTCAAGA+TGG 0.588692 8:+57752131 None:intergenic
GATGGCCGCCACAACTTCAG+AGG 0.592308 8:+57752149 None:intergenic
TATCTTGGAAGTTACTATGA+CGG 0.596611 8:+57751338 None:intergenic
GCCAGAAATGAATCTGGCTG+AGG 0.596965 8:+57751601 None:intergenic
TGCAGCCTCTGAAGTTGTGG+CGG 0.606081 8:-57752154 MsaT044248.1:CDS
CTGAAACATCATGCTGAAAG+GGG 0.608148 8:+57751212 None:intergenic
TCCAGAAGTGAGTGTAACCA+TGG 0.609657 8:+57751993 None:intergenic
CTAATTGGCTAGTTGCAGCT+GGG 0.611160 8:-57752627 MsaT044248.1:CDS
TACCTAGGAGGAATGGCAGA+GGG 0.611350 8:+57752535 None:intergenic
TACCCGGCTGAAAGCAAAGA+GGG 0.611619 8:-57754227 MsaT044248.1:CDS
TTGAAGAGTAATGAGCAAGC+AGG 0.612567 8:-57752126 MsaT044248.1:CDS
TGGCACATAACAATAATCAA+GGG 0.613321 8:-57751309 MsaT044248.1:CDS
ATGGGAATGATTGGGATGAG+AGG 0.616809 8:+57752381 None:intergenic
GTATGTAATGCAGTTGACAT+TGG 0.617784 8:+57751628 None:intergenic
GAATTTGCATCAATACATGC+CGG 0.618887 8:-57752283 MsaT044248.1:CDS
AAGTTCCCAGAAGGAGGCAA+TGG 0.626716 8:+57751520 None:intergenic
ACAGTATGCAAGTTCCCAGA+AGG 0.630858 8:+57751511 None:intergenic
GTATGCAAGTTCCCAGAAGG+AGG 0.631112 8:+57751514 None:intergenic
TTAGGCAACATGGTGCAGAT+GGG 0.631526 8:-57751390 MsaT044248.1:CDS
GCATCTGAGGAGACAGTACG+GGG 0.632228 8:+57752228 None:intergenic
TTACCTAGGAGGAATGGCAG+AGG 0.641048 8:+57752534 None:intergenic
GGCACATAACAATAATCAAG+GGG 0.641216 8:-57751308 MsaT044248.1:CDS
ATGAGGTTCAGATGTAGGTG+TGG 0.647403 8:+57751690 None:intergenic
TCGTCTAATGCCCTTAGCAG+GGG 0.652307 8:-57752205 MsaT044248.1:CDS
CTACATCCAAAGAAACAGAA+GGG 0.654763 8:+57752433 None:intergenic
ATTTACTTTAATAGCTCGAG+GGG 0.658318 8:-57751256 MsaT044248.1:CDS
ATCTGAGGAGACAGTACGGG+GGG 0.661328 8:+57752230 None:intergenic
GAAGACACGATTGAATACGA+TGG 0.663763 8:+57751796 None:intergenic
GAGCTGGTAACTTCCTAGGG+GGG 0.673031 8:-57751180 MsaT044248.1:CDS
CCCAATCATTCCCATCGAGG+AGG 0.674658 8:-57752373 MsaT044248.1:CDS
ATTTGAGGACGAACTTGCAG+TGG 0.676325 8:+57752017 None:intergenic
GGATTGAAAGATGAAACTGA+TGG 0.677966 8:+57751859 None:intergenic
GGAGCTGGTAACTTCCTAGG+GGG 0.677996 8:-57751181 MsaT044248.1:CDS
ATGTATTGATGCAAATTCTG+TGG 0.682900 8:+57752288 None:intergenic
TCGAGTGTAGATGTAAACAA+AGG 0.685704 8:+57751946 None:intergenic
GTTTACATCTACACTCGATG+TGG 0.686261 8:-57751941 MsaT044248.1:CDS
CATCCCAATCATTCCCATCG+AGG 0.693777 8:-57752376 MsaT044248.1:CDS
GGGAGCTGGTAACTTCCTAG+GGG 0.705156 8:-57751182 MsaT044248.1:CDS
TTTACTTTAATAGCTCGAGG+GGG 0.714437 8:-57751255 MsaT044248.1:CDS
TGACCGCTTTCGAACCCAGG+AGG 0.723419 8:+57752892 None:intergenic
ATACCCGGCTGAAAGCAAAG+AGG 0.724781 8:-57754228 MsaT044248.1:CDS
CATCTGAGGAGACAGTACGG+GGG 0.770239 8:+57752229 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 57751153 57754290 57751153 ID=MsaG044248
Chr8 mRNA 57751153 57754290 57751153 ID=MsaT044248.1;Parent=MsaG044248
Chr8 exon 57751153 57752455 57751153 ID=MsaT044248.1.exon4;Parent=MsaT044248.1
Chr8 CDS 57751153 57752455 57751153 ID=cds.MsaT044248.1;Parent=MsaT044248.1
Chr8 exon 57752538 57752662 57752538 ID=MsaT044248.1.exon3;Parent=MsaT044248.1
Chr8 CDS 57752538 57752662 57752538 ID=cds.MsaT044248.1;Parent=MsaT044248.1
Chr8 exon 57752825 57753009 57752825 ID=MsaT044248.1.exon2;Parent=MsaT044248.1
Chr8 CDS 57752825 57753009 57752825 ID=cds.MsaT044248.1;Parent=MsaT044248.1
Chr8 exon 57754146 57754290 57754146 ID=MsaT044248.1.exon1;Parent=MsaT044248.1
Chr8 CDS 57754146 57754290 57754146 ID=cds.MsaT044248.1;Parent=MsaT044248.1
Gene Sequence

>MsaT044248.1

ATGAGCAATCCAGCAAATGTTCTAATCCTGTTGTTGAAAAATACCCGGCTGAAAGCAAAGAGGGCATTCTCTGATTATGGAAGAAGGCATGACTCTGAAATAAGCCCACGCATACTGAGTTTTGGCACAAAACATCGTTGTTTTGATTACCCGTCAAAAGTTGGCCTGAATTTACAAGACAGTCTTGAAGCAAAGGCGTCATCAATGTTGTGTTCTAGTACTAATGAATCTATCGATTTACCTCCTGGGTTCGAAAGCGGTCATTTCCCTAACCAATCAAAGGTTCAATTCTCCCACATTCCTAAGATAAAATGGGAATGCCCTCTCCCGTTTGTGTTCAGTCCTAATTGGCTAGTTGCAGCTGGGCAAGAAAGTAGGGAGAAAGAGGTTCAGAAGCTGAGAGAAATAAGAGTGCTTGAAGCAGTTTATCCCCGACCCTCTGCCATTCCTCCTAGCCCTTCTGTTTCTTTGGATGTAGAAGAGGAAGAATATGATGATAACAGTACTCCTCTCATCCCAATCATTCCCATCGAGGAGGAAGAGTCTATGACTAATTTGCCTAAATTAGCAGCAGCAGTGAACACTCATCCCAATGTTCAGCCACAGAATTTGCATCAATACATGCCGGCAACAACTTCCAATAGTTCAGACCGTAATTCCCCCCGTACTGTCTCCTCAGATGCTCGTCTAATGCCCTTAGCAGGGGTATCTTCTAGTTTGGAAGCTGACGCAGCTGCAGCCTCTGAAGTTGTGGCGGCCATCTTGAAGAGTAATGAGCAAGCAGGCTTAATTGATATGGATCTACTCGTAAAAATTTTAAATGACCCAAAAATGATTGAGAATTTGATCAATGAGCATGGAGTTGCCGCCACCACTGCAAGTTCGTCCTCAAATTCCATGGTTACACTCACTTCTGGATTGAAAGCTGCTACTCCTTCAGTTCCTTTGTTTACATCTACACTCGATGTGGCAGCTTCTAGGAACTCACACACTAGTTCTGTGGGTTTTTCTGGGTTGAAGCCTGCAATTCCATCAGTTTCATCTTTCAATCCTACATCTGGTAAGCCAACTACTCTGTTTGCTCCTGCAATTCCATCGTATTCAATCGTGTCTTCTGCACATGATAAGCCAGCAACTGCGTCAGCTCCATTGTCTAGGCCAGTATCCAGTAAACCAATATCCCCCCCTGTTTTTATGTCCACACCTACATCTGAACCTCATATGCCCAGACCTGTCAACAATAATTTTCACATGTCAAGTCCAATGTCAACTGCATTACATACTCAGCCTCAGCCAGATTCATTTCTGGCATCTGGGGTGAAGCGATCTGCATCTTTCACTTTTTCTTCTAGTGAACAAAGCACAGTTCCATTGCCTCCTTCTGGGAACTTGCATACTGTTTTGAACAATACACAACCCATTGCTAGTACAAAGCCTTATCAAACAAGTTCAGGTTCAGCATCTGCTGTAAAGGATGCTAACTATTATAAAAACCTCATTAGGCAACATGGTGCAGATGGGCAAGATAAGCTGGACTCACAAATAGGTAGCCGTCATAGTAACTTCCAAGATATGAAATTGGCACATAACAATAATCAAGGGGAAGTCAAATACAAAAGCAAGAAACAATGCATTTACTTTAATAGCTCGAGGGGGTGCAGGAATGGTTCCGATTGCCCCTTTCAGCATGATGTTTCAGCTGAGTCGGGAGCTGGTAACTTCCTAGGGGGGCAGAGTGCTAAAAGATTTAAGTTGTGA
Protein sequence

>MsaT044248.1

MSNPANVLILLLKNTRLKAKRAFSDYGRRHDSEISPRILSFGTKHRCFDYPSKVGLNLQDSLEAKASSMLCSSTNESIDLPPGFESGHFPNQSKVQFSHIPKIKWECPLPFVFSPNWLVAAGQESREKEVQKLREIRVLEAVYPRPSAIPPSPSVSLDVEEEEYDDNSTPLIPIIPIEEEESMTNLPKLAAAVNTHPNVQPQNLHQYMPATTSNSSDRNSPRTVSSDARLMPLAGVSSSLEADAAAASEVVAAILKSNEQAGLIDMDLLVKILNDPKMIENLINEHGVAATTASSSSNSMVTLTSGLKAATPSVPLFTSTLDVAASRNSHTSSVGFSGLKPAIPSVSSFNPTSGKPTTLFAPAIPSYSIVSSAHDKPATASAPLSRPVSSKPISPPVFMSTPTSEPHMPRPVNNNFHMSSPMSTALHTQPQPDSFLASGVKRSASFTFSSSEQSTVPLPPSGNLHTVLNNTQPIASTKPYQTSSGSASAVKDANYYKNLIRQHGADGQDKLDSQIGSRHSNFQDMKLAHNNNQGEVKYKSKKQCIYFNSSRGCRNGSDCPFQHDVSAESGAGNFLGGQSAKRFKL*