AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG029395


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029395 MtrunA17_Chr1g0203051 57.509 273 110 2 1 273 1 267 1.30e-102 320
MsaG029395 MtrunA17_Chr8g0389811 48.551 138 71 0 59 196 58 195 1.12e-44 155
MsaG029395 MtrunA17_Chr2g0331371 40.476 168 86 2 34 193 2 163 1.11e-32 123
MsaG029395 MtrunA17_Chr6g0473421 40.741 135 66 2 34 160 2 130 1.96e-28 110
MsaG029395 MtrunA17_Chr2g0287651 29.592 196 132 2 76 267 66 259 5.72e-27 114
MsaG029395 MtrunA17_Chr1g0171741 33.158 190 119 3 33 215 74 262 2.25e-26 107
MsaG029395 MtrunA17_Chr1g0172931 42.727 110 63 0 58 167 49 158 8.45e-22 92.0
MsaG029395 MtrunA17_Chr8g0340801 49.412 85 42 1 196 279 1 85 1.52e-20 86.7
MsaG029395 MtrunA17_Chr2g0290391 31.169 154 102 3 97 247 63 215 1.63e-17 85.5
MsaG029395 MtrunA17_Chr1g0198761 30.556 180 108 6 61 224 16 194 1.17e-15 79.7
MsaG029395 MtrunA17_Chr2g0276841 35.433 127 77 4 97 219 82 207 8.01e-14 73.9
MsaG029395 MtrunA17_Chr8g0366311 47.458 59 31 0 58 116 52 110 2.31e-12 63.5
MsaG029395 MtrunA17_Chr5g0448761 26.984 189 129 4 91 273 66 251 6.58e-12 68.2
MsaG029395 MtrunA17_Chr5g0431001 30.435 138 86 3 96 224 72 208 2.40e-11 65.9
MsaG029395 MtrunA17_Chr6g0458391 25.131 191 113 7 97 261 103 289 3.92e-11 65.5
MsaG029395 MtrunA17_Chr7g0228061 44.318 88 42 4 396 478 5 90 5.04e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029395 AT5G28530.1 29.167 192 119 5 97 273 67 256 1.90e-19 92.0
MsaG029395 AT5G28530.3 29.167 192 119 5 97 273 67 256 2.01e-19 92.0
MsaG029395 AT5G28530.2 29.167 192 119 5 97 273 67 256 2.01e-19 92.0
MsaG029395 AT5G28530.5 32.374 139 91 2 97 233 67 204 2.30e-19 91.7
MsaG029395 AT5G28530.4 32.374 139 91 2 97 233 67 204 2.38e-19 91.7
MsaG029395 AT1G10240.2 34.074 135 80 5 96 224 59 190 1.00e-12 70.9
MsaG029395 AT1G10240.1 34.074 135 80 5 96 224 59 190 1.00e-12 70.9

Find 101 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATTGCATCTTTAGCACTTT+TGG 0.220681 5:+76560303 None:intergenic
CGTTCCATCACAACAGTTTC+CGG 0.225407 5:+76560331 None:intergenic
CCTCCACATACTCCACATTT+AGG 0.288554 5:+76559959 None:intergenic
CTTTCCTCATTGCTTTCATT+TGG 0.313855 5:+76561577 None:intergenic
TTTGTCATAGAGAAGGTTTC+CGG 0.338339 5:-76561812 MsaT029395.1:CDS
CCTTGAGAAAATTAATTTCA+AGG 0.345881 5:-76561988 MsaT029395.1:CDS
TTTGGTGTGGGTCCAGCGAC+GGG 0.348536 5:-76560079 MsaT029395.1:CDS
ATTCCTACGTCACGTATCTA+TGG 0.365780 5:-76561549 MsaT029395.1:CDS
GGTTGTGTGCACGGATTTGC+CGG 0.389576 5:-76561891 MsaT029395.1:CDS
TGCAAGAGATTGGAGACATT+TGG 0.392842 5:-76560409 MsaT029395.1:CDS
GAGTTCCTCGGATGATGATA+TGG 0.394732 5:-76562078 MsaT029395.1:CDS
AGCTAGTAGGTGTGGGTGTA+TGG 0.394921 5:-76561742 MsaT029395.1:CDS
TATACACAAAACCATTGAAA+TGG 0.395440 5:-76560158 MsaT029395.1:CDS
TATGAACATAAGAAAATTGC+CGG 0.401136 5:-76560350 MsaT029395.1:CDS
TGAATGCTCGTGCAAGAGAT+TGG 0.428645 5:-76560419 MsaT029395.1:CDS
CTTGGACAGTGGCTCTTCTT+CGG 0.429033 5:-76562111 MsaT029395.1:CDS
TTGTCATAGAGAAGGTTTCC+GGG 0.431471 5:-76561811 MsaT029395.1:CDS
CTCAGAAACTGATTATGAAC+AGG 0.434115 5:-76559885 MsaT029395.1:CDS
ATCCCGGTGACTTGAACTAT+TGG 0.441196 5:+76560267 None:intergenic
TCAAATGTGAGCAACATAAC+GGG 0.446705 5:-76562294 MsaT029395.1:CDS
GTTTGGTGTGGGTCCAGCGA+CGG 0.454406 5:-76560080 MsaT029395.1:CDS
CTTGAATTGCTCATTGTACA+TGG 0.461269 5:+76561473 None:intergenic
CCAGCGACGGGGAGAAGCTT+AGG 0.461374 5:-76560067 MsaT029395.1:CDS
TGTGGAGTATGTGGAGGAAA+GGG 0.464409 5:-76559953 MsaT029395.1:CDS
GGTCAAGTTGATGAGGTGTT+TGG 0.465868 5:-76560097 MsaT029395.1:CDS
GGAGACATTTGGTATTCCTC+AGG 0.468883 5:-76560398 MsaT029395.1:CDS
AACTACGTATGTTATGTTTG+TGG 0.474919 5:-76560233 MsaT029395.1:CDS
TGCATTTCGAGTTGAAGAAT+CGG 0.477767 5:+76560006 None:intergenic
GCTGGTGGATTCAGACATCT+AGG 0.489368 5:-76561510 MsaT029395.1:CDS
CCTAAGCTTCTCCCCGTCGC+TGG 0.489879 5:+76560067 None:intergenic
TTTATGATGACAATGACGAT+TGG 0.491653 5:-76559859 MsaT029395.1:CDS
TCACTCATCTTTCTATGTGC+AGG 0.492964 5:+76561612 None:intergenic
GAGAGCAGAAGCCAGCTAGT+AGG 0.495906 5:-76561755 MsaT029395.1:CDS
TTCAAATGTGAGCAACATAA+CGG 0.501010 5:-76562295 MsaT029395.1:CDS
ATGAAAGCAATGAGGAAAGC+TGG 0.503092 5:-76561573 MsaT029395.1:CDS
TGACGATTGGAACGTTCCTA+TGG 0.504057 5:-76559846 MsaT029395.1:intron
TAGGTAATCCTCAGCGGCGT+AGG 0.507178 5:-76560048 MsaT029395.1:CDS
GACACGTACAATTCGACGTA+TGG 0.507400 5:-76562053 MsaT029395.1:CDS
GGAAAGTGTCGTGAGTTCCT+CGG 0.511312 5:-76562090 MsaT029395.1:CDS
ATGCCAATAGTTCAAGTCAC+CGG 0.516528 5:-76560270 MsaT029395.1:CDS
CAGAAGCCAGCTAGTAGGTG+TGG 0.527642 5:-76561750 MsaT029395.1:CDS
ATGTGGAGTATGTGGAGGAA+AGG 0.529949 5:-76559954 MsaT029395.1:CDS
TATTGTCATTCCTTGCATCC+CGG 0.530083 5:+76561793 None:intergenic
ACAATGAGCAATTCAAGGAT+AGG 0.534325 5:-76561467 MsaT029395.1:CDS
ACGCCTAAATGTGGAGTATG+TGG 0.534842 5:-76559962 MsaT029395.1:CDS
CCTCAGCGGCGTAGGAAAAG+AGG 0.535230 5:-76560040 MsaT029395.1:CDS
CAATGAGCAATTCAAGGATA+GGG 0.537667 5:-76561466 MsaT029395.1:CDS
AACAACACGGGATCTTCTAC+CGG 0.539063 5:+76561872 None:intergenic
CATGTACAATGAGCAATTCA+AGG 0.539489 5:-76561472 MsaT029395.1:CDS
GTTGATGAGGTGTTTGGTGT+GGG 0.541519 5:-76560091 MsaT029395.1:CDS
ACCTTTGTTTGTCATAGAGA+AGG 0.542041 5:-76561819 MsaT029395.1:CDS
GGAAGCAATTGAATTTCTGA+AGG 0.545431 5:-76561421 MsaT029395.1:CDS
AATAGGTACGGTTGTGTGCA+CGG 0.547142 5:-76561900 MsaT029395.1:CDS
GACGAAGAGTTCTGATGCAG+AGG 0.547324 5:-76561442 MsaT029395.1:CDS
GAAGGCAACGTAGGTGTGGA+AGG 0.552457 5:-76562270 MsaT029395.1:CDS
AGTTGATGAGGTGTTTGGTG+TGG 0.553811 5:-76560092 MsaT029395.1:CDS
CGTAGGTGTGGAAGGTTCAG+AGG 0.567602 5:-76562262 MsaT029395.1:intron
ACATACGTAGTTACAAAAGC+AGG 0.568046 5:+76560244 None:intergenic
TAGTTACAAAAGCAGGATCC+CGG 0.574230 5:+76560251 None:intergenic
GAAGCAATTGAATTTCTGAA+GGG 0.574630 5:-76561420 MsaT029395.1:CDS
ATTCAAGTTCACGTTGACTA+CGG 0.576810 5:-76561714 MsaT029395.1:CDS
GACATCTAGGATATTCAAGA+AGG 0.580326 5:-76561497 MsaT029395.1:CDS
AGAAGCCAGCTAGTAGGTGT+GGG 0.582078 5:-76561749 MsaT029395.1:CDS
TGCCAATAGTTCAAGTCACC+GGG 0.582672 5:-76560269 MsaT029395.1:CDS
GAGAAGGTTTCCGGGATGCA+AGG 0.585476 5:-76561803 MsaT029395.1:CDS
GTGTCATGTCGGTTCCGTCA+CGG 0.585630 5:-76559920 MsaT029395.1:CDS
ACACGTACAATTCGACGTAT+GGG 0.592382 5:-76562052 MsaT029395.1:CDS
ATTGCCGGAAACTGTTGTGA+TGG 0.595496 5:-76560335 MsaT029395.1:CDS
AGTCTATAGTTGCTCCGTGA+CGG 0.595691 5:+76559906 None:intergenic
AAACGGAACACGCCTAAATG+TGG 0.598130 5:-76559971 MsaT029395.1:CDS
GACATTGGAATCATTCAACA+TGG 0.602715 5:-76560119 MsaT029395.1:CDS
ATTCTACAGGACTTGGACAG+TGG 0.602899 5:-76562122 MsaT029395.1:intron
CATGCTTGTTCTTAACAACA+CGG 0.605806 5:+76561859 None:intergenic
TGTGGAGCGTTGCAAGAGGA+TGG 0.606817 5:-76560215 MsaT029395.1:CDS
ATACACCCACACCTACTAGC+TGG 0.608717 5:+76561744 None:intergenic
CGTGTTGTTAAGAACAAGCA+TGG 0.609169 5:-76561858 MsaT029395.1:CDS
CAACATGGGTCAAGTTGATG+AGG 0.613553 5:-76560104 MsaT029395.1:CDS
CAAATGTGAGCAACATAACG+GGG 0.613878 5:-76562293 MsaT029395.1:CDS
ACCTTCTCTATGACAAACAA+AGG 0.615884 5:+76561818 None:intergenic
AAGCAATTGAATTTCTGAAG+GGG 0.619311 5:-76561419 MsaT029395.1:CDS
GTTGAATGATTCCAATGTCT+CGG 0.623807 5:+76560123 None:intergenic
ATGCTTGTTCTTAACAACAC+GGG 0.628391 5:+76561860 None:intergenic
TGGATTGCCACACTTTAACA+CGG 0.643470 5:+76560186 None:intergenic
TTGGTGTGGGTCCAGCGACG+GGG 0.643872 5:-76560078 MsaT029395.1:CDS
GTCACAACCGCGTGTCATGT+CGG 0.644843 5:-76559931 MsaT029395.1:CDS
GTCTTCCATATCATCATCCG+AGG 0.646493 5:+76562073 None:intergenic
ATTCCTCAGGAACATGTCGT+AGG 0.653502 5:-76560385 MsaT029395.1:CDS
GCAAACGCCGTGTTAAAGTG+TGG 0.653557 5:-76560193 MsaT029395.1:CDS
TGTTTGTGGAGCGTTGCAAG+AGG 0.662336 5:-76560219 MsaT029395.1:CDS
GACGGAACCGACATGACACG+CGG 0.668500 5:+76559924 None:intergenic
AATACCAAATGAAAGCAATG+AGG 0.671984 5:-76561581 MsaT029395.1:CDS
CCTAAATGTGGAGTATGTGG+AGG 0.673219 5:-76559959 MsaT029395.1:CDS
ACGTTGACTACGGTAGTGAA+CGG 0.682166 5:-76561704 MsaT029395.1:CDS
AAACTGTTGTGATGGAACGA+TGG 0.688506 5:-76560327 MsaT029395.1:CDS
CAGCGGCGTAGGAAAAGAGG+CGG 0.688608 5:-76560037 MsaT029395.1:CDS
ACACCTACGACATGTTCCTG+AGG 0.697213 5:+76560382 None:intergenic
AAACCATAGATACGTGACGT+AGG 0.700125 5:+76561546 None:intergenic
ACATTGGAATCATTCAACAT+GGG 0.706086 5:-76560118 MsaT029395.1:CDS
GAAGCTTAGGTAATCCTCAG+CGG 0.739974 5:-76560054 MsaT029395.1:CDS
AAATGTGAGCAACATAACGG+GGG 0.740353 5:-76562292 MsaT029395.1:CDS
TTGACTACGGTAGTGAACGG+TGG 0.752541 5:-76561701 MsaT029395.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 76559743 76562352 76559743 ID=MsaG029395
Chr5 mRNA 76559743 76562352 76559743 ID=MsaT029395.1;Parent=MsaG029395
Chr5 exon 76559743 76559757 76559743 ID=MsaT029395.1.exon4;Parent=MsaT029395.1
Chr5 CDS 76559743 76559757 76559743 ID=cds.MsaT029395.1;Parent=MsaT029395.1
Chr5 exon 76559847 76560454 76559847 ID=MsaT029395.1.exon3;Parent=MsaT029395.1
Chr5 CDS 76559847 76560454 76559847 ID=cds.MsaT029395.1;Parent=MsaT029395.1
Chr5 exon 76561412 76562135 76561412 ID=MsaT029395.1.exon2;Parent=MsaT029395.1
Chr5 CDS 76561412 76562135 76561412 ID=cds.MsaT029395.1;Parent=MsaT029395.1
Chr5 exon 76562263 76562352 76562263 ID=MsaT029395.1.exon1;Parent=MsaT029395.1
Chr5 CDS 76562263 76562352 76562263 ID=cds.MsaT029395.1;Parent=MsaT029395.1
Gene Sequence

>MsaT029395.1

ATGGATATGAATGAAATTCTTGAAATTTTTCAAGTTTCAAATGTGAGCAACATAACGGGGGAAGGCAACGTAGGTGTGGAAGGTTCAGAGGACTTGGACAGTGGCTCTTCTTCGGAAAGTGTCGTGAGTTCCTCGGATGATGATATGGAAGACACGTACAATTCGACGTATGGGTGCAGTTTTGATGATGAATTTGCGGTTGATTGCATGACTGACCTTGAGAAAATTAATTTCAAGGAATTAAGTTACGATGACTTTATGATGTACCATTTTTCGGATCGTCTAGTTGCATTCAAGTTTTACAATAGGTACGGTTGTGTGCACGGATTTGCCGGTAGAAGATCCCGTGTTGTTAAGAACAAGCATGGCGATGCTATTCAACAAACCTTTGTTTGTCATAGAGAAGGTTTCCGGGATGCAAGGAATGACAATAATCCGTCTAGAAAAAGAGAGCAGAAGCCAGCTAGTAGGTGTGGGTGTATGGCAAGAATTCAAGTTCACGTTGACTACGGTAGTGAACGGTGGTACATAAAAATGTTTGACGATGTTCATAATCACTCATTTTTGGATAATAAGTATGAGGGGATGCTACCTGCACATAGAAAGATGAGTGATTATGACAAATACCAAATGAAAGCAATGAGGAAAGCTGGCATTCCTACGTCACGTATCTATGGTTTTTTTGCTTCACAAGCTGGTGGATTCAGACATCTAGGATATTCAAGAAGGACCATGTACAATGAGCAATTCAAGGATAGGGAGACGAAGAGTTCTGATGCAGAGGAAGCAATTGAATTTCTGAAGGGGTTGTCTAAACAATTAAAATTTGAATGCTCGTGCAAGAGATTGGAGACATTTGGTATTCCTCAGGAACATGTCGTAGGTGTTTTAGTGCATATGAACATAAGAAAATTGCCGGAAACTGTTGTGATGGAACGATGGACCAAAAGTGCTAAAGATGCAATCAATGCACAAAATGCCAATAGTTCAAGTCACCGGGATCCTGCTTTTGTAACTACGTATGTTATGTTTGTGGAGCGTTGCAAGAGGATGGCAAACGCCGTGTTAAAGTGTGGCAATCCAGATTATATACACAAAACCATTGAAATGGTTGAAAAACACACCGAGACATTGGAATCATTCAACATGGGTCAAGTTGATGAGGTGTTTGGTGTGGGTCCAGCGACGGGGAGAAGCTTAGGTAATCCTCAGCGGCGTAGGAAAAGAGGCGGAGAAGCAGCCGATTCTTCAACTCGAAATGCAAATGCGAACAAAAAACGGAACACGCCTAAATGTGGAGTATGTGGAGGAAAGGGTCACAACCGCGTGTCATGTCGGTTCCGTCACGGAGCAACTATAGACTCAGAAACTGATTATGAACAGGAATTTTATGATGACAATGACGATTGGAACGTTCCTATGGAGGACTTGAATTAA

Protein sequence

>MsaT029395.1

MDMNEILEIFQVSNVSNITGEGNVGVEGSEDLDSGSSSESVVSSSDDDMEDTYNSTYGCSFDDEFAVDCMTDLEKINFKELSYDDFMMYHFSDRLVAFKFYNRYGCVHGFAGRRSRVVKNKHGDAIQQTFVCHREGFRDARNDNNPSRKREQKPASRCGCMARIQVHVDYGSERWYIKMFDDVHNHSFLDNKYEGMLPAHRKMSDYDKYQMKAMRKAGIPTSRIYGFFASQAGGFRHLGYSRRTMYNEQFKDRETKSSDAEEAIEFLKGLSKQLKFECSCKRLETFGIPQEHVVGVLVHMNIRKLPETVVMERWTKSAKDAINAQNANSSSHRDPAFVTTYVMFVERCKRMANAVLKCGNPDYIHKTIEMVEKHTETLESFNMGQVDEVFGVGPATGRSLGNPQRRRKRGGEAADSSTRNANANKKRNTPKCGVCGGKGHNRVSCRFRHGATIDSETDYEQEFYDDNDDWNVPMEDLN*