AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG045315

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045315 MtrunA17_Chr4g0061801 94.337 618 29 4 1 616 1 614 0.0 1179
MsaG045315 MtrunA17_Chr7g0271951 42.405 158 85 4 32 187 426 579 4.16e-34 139
MsaG045315 MtrunA17_Chr7g0271951 43.000 100 54 2 514 611 794 892 1.32e-13 74.3
MsaG045315 MtrunA17_Chr8g0388341 34.426 183 86 10 32 189 34 207 7.21e-18 88.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045315 AT3G05670.3 33.091 275 169 8 32 297 413 681 4.39e-36 145
MsaG045315 AT3G05670.1 33.091 275 169 8 32 297 413 681 4.39e-36 145
MsaG045315 AT3G05670.2 33.091 275 169 8 32 297 413 681 4.39e-36 145
MsaG045315 AT4G10930.2 29.193 161 82 7 32 165 31 186 5.73e-12 69.7
MsaG045315 AT4G10930.1 29.193 161 82 7 32 165 31 186 6.04e-12 69.7

Find 133 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAACTGCTTCGTGAAAAT+TGG 0.164253 8:-71285876 MsaT045315.1:CDS
TGAATTCTACTTGTTCTTCT+AGG 0.221047 8:+71285598 None:intergenic
CTTTAAGAAGTGGTAAATTA+AGG 0.236521 8:-71285849 MsaT045315.1:CDS
CTGATATTCCTTTACTTGAT+AGG 0.247121 8:-71285957 MsaT045315.1:CDS
ATCCTTCTAAATGAGTATTA+TGG 0.255331 8:+71285335 None:intergenic
GTCACACTTCTCCTGCATTT+TGG 0.285478 8:+71285462 None:intergenic
TTAGCTATCAATAAACAATT+AGG 0.302117 8:-71285019 MsaT045315.1:intron
GTACATAAAGTCTAATGTTC+TGG 0.310120 8:+71285486 None:intergenic
AAAGATCACATATTAGTATA+AGG 0.325967 8:+71286220 None:intergenic
TTAAATATTGTGAGAGGAAC+AGG 0.351776 8:-71286039 MsaT045315.1:CDS
ACTACTAGTATGGACCTTAC+TGG 0.359804 8:+71285294 None:intergenic
ACTTCTGAAACTGAAGATTA+TGG 0.364745 8:+71284622 None:intergenic
AAAGCATTGCCGGCAACAAT+TGG 0.364853 8:+71284587 None:intergenic
ATTAGATGATTCACATTCAA+TGG 0.372803 8:-71285752 MsaT045315.1:CDS
TGTGGGCACTACTACTAGTA+TGG 0.376382 8:+71285284 None:intergenic
ATTTAATGCCCAATTGTTGC+CGG 0.388879 8:-71284596 MsaT045315.1:CDS
TTGCCTTGCAACTACCTTGA+AGG 0.388899 8:+71284731 None:intergenic
AATTTAGTTTAACAAGAGAT+TGG 0.390354 8:+71285050 None:intergenic
CGAAGACATGAAAGCATTGC+CGG 0.390475 8:+71284577 None:intergenic
CTTCGTTTGCATCATGGAAT+GGG 0.391668 8:-71287293 MsaT045315.1:CDS
AACCATAATACTCATTTAGA+AGG 0.398353 8:-71285337 MsaT045315.1:CDS
CATTGTGACAGGGAGCTTTG+TGG 0.398680 8:+71285266 None:intergenic
CGACACAGGTTTCTTACCTT+CGG 0.400888 8:+71285924 None:intergenic
AATATCCACATCCTTCTTAG+AGG 0.404123 8:+71285150 None:intergenic
GGCATTTCTTTCATTGTGAC+AGG 0.404307 8:+71285255 None:intergenic
ATACTCATTTAGAAGGATAC+AGG 0.406220 8:-71285330 MsaT045315.1:CDS
GCTTCGTTTGCATCATGGAA+TGG 0.409819 8:-71287294 MsaT045315.1:CDS
AAGAGGTTGGCTAAAAGCTT+CGG 0.412773 8:-71285115 MsaT045315.1:CDS
TGATATTCCTTTACTTGATA+GGG 0.413112 8:-71285956 MsaT045315.1:CDS
ACAAAGGCAGTCTGCTTACT+TGG 0.414772 8:-71285224 MsaT045315.1:CDS
AAGAACAAGTAGAATTCAAC+AGG 0.416343 8:-71285593 MsaT045315.1:CDS
CGTTCAGCATTAGAATCAAC+AGG 0.416387 8:+71286279 None:intergenic
TGACAAAACCAATCACCTTC+AGG 0.418997 8:+71286150 None:intergenic
ATTGTGACAGGGAGCTTTGT+GGG 0.421453 8:+71285267 None:intergenic
TAAGATTCCTATTCGCGATC+AGG 0.423084 8:-71287176 MsaT045315.1:intron
TCCTCTCACAATATTTAAGA+TGG 0.424076 8:+71286044 None:intergenic
AGAGGTTGGCTAAAAGCTTC+GGG 0.425317 8:-71285114 MsaT045315.1:CDS
TCATGATTGTGCTGTTTCCC+TGG 0.425637 8:-71286130 MsaT045315.1:CDS
CATAGCAAAACATTTCAATC+TGG 0.432016 8:-71285823 MsaT045315.1:CDS
TATAATTAGCATTAGTCTCC+AGG 0.433571 8:+71286112 None:intergenic
GGCAAGCAGCCAAGATGGTA+TGG 0.433665 8:+71284703 None:intergenic
ACACCGTTCCTGAAGGTGAT+TGG 0.439694 8:-71286158 MsaT045315.1:CDS
AGACTGCCTTTGTTCCTTTG+AGG 0.442729 8:+71285234 None:intergenic
TACATAAAGTCTAATGTTCT+GGG 0.448158 8:+71285487 None:intergenic
AAGATGACGTTGACAAAGCT+TGG 0.449233 8:-71285657 MsaT045315.1:CDS
CGCAGGTGTCGAAACCTTCA+AGG 0.466026 8:-71284745 MsaT045315.1:intron
ACTGAAGATTATGGTCAGTA+TGG 0.467842 8:+71284631 None:intergenic
AAATCATCGGTCTCCGATGT+TGG 0.470526 8:-71285413 MsaT045315.1:CDS
GCTTACTTGGTAACTTCAGT+AGG 0.472358 8:-71285211 MsaT045315.1:CDS
AATCATCGGTCTCCGATGTT+GGG 0.475724 8:-71285412 MsaT045315.1:CDS
TACGAACGTTTGAGAATCTC+TGG 0.476070 8:+71287239 None:intergenic
CCATTGGTCTTCTAACCACT+TGG 0.476561 8:+71286013 None:intergenic
TTGCAGCAATCAATTTGTGC+AGG 0.486323 8:+71287328 None:intergenic
AGAATGACCTGATCGCGAAT+AGG 0.488034 8:+71287169 None:intergenic
GACTAATGCTAATTATATGC+TGG 0.488179 8:-71286106 MsaT045315.1:CDS
AAGTAGAATTCAACAGGAAG+TGG 0.490243 8:-71285587 MsaT045315.1:CDS
TGGGCATCGAGATTCATGTT+TGG 0.492358 8:+71287270 None:intergenic
AAATTCCACAGCAAACATCT+TGG 0.499946 8:+71287377 None:intergenic
TGGGAGAGAAAAGGCAAAGT+AGG 0.501891 8:-71285393 MsaT045315.1:CDS
GTTGGACTGTGGATTGTTGA+CGG 0.502066 8:+71285719 None:intergenic
TTCTAGGTTTACCATCCTCA+TGG 0.502370 8:-71286318 MsaT045315.1:intron
CTACTAGTATGGACCTTACT+GGG 0.506180 8:+71285295 None:intergenic
GCAAGCCACCCATACCATCT+TGG 0.510712 8:-71284712 MsaT045315.1:CDS
CTGCTCACCCTATCAAGTAA+AGG 0.512028 8:+71285949 None:intergenic
GAGAATCTCTGGCGACAAAG+TGG 0.512531 8:+71287250 None:intergenic
TTTCAATAAAGAAAAGAGGT+TGG 0.515495 8:-71285128 MsaT045315.1:CDS
ATATTTAAGATGGTTACATC+AGG 0.520921 8:+71286054 None:intergenic
AATTGGAATTCTTTAAGAAG+TGG 0.523493 8:-71285859 MsaT045315.1:CDS
AAGCATTGCCGGCAACAATT+GGG 0.527114 8:+71284588 None:intergenic
ATGGCTGCATACTGAGTTCG+AGG 0.528787 8:+71284650 None:intergenic
AATTCTAGTTCTTTATCAAG+TGG 0.532006 8:-71285778 MsaT045315.1:CDS
CTTTATGTACGCCAAAATGC+AGG 0.532125 8:-71285473 MsaT045315.1:CDS
CAATGAAAGAAATGCCTCAA+AGG 0.533882 8:-71285248 MsaT045315.1:CDS
TGTCGTACAGGAGATGCCAT+TGG 0.542278 8:+71285997 None:intergenic
CGATGTTGTCAAGTCGGTGT+TGG 0.542402 8:-71284550 MsaT045315.1:CDS
TTCTCTAGCACCACTGCATG+AGG 0.543758 8:+71285555 None:intergenic
GGAACGTCCATTGCCCAGTA+AGG 0.546548 8:-71285308 MsaT045315.1:CDS
ATTAGAATCAACAGGACCAC+TGG 0.553330 8:+71286287 None:intergenic
CTCCGATGTTGGGAGAGAAA+AGG 0.553404 8:-71285402 MsaT045315.1:CDS
AAGAAAAGACATCATGCATA+GGG 0.555505 8:+71287212 None:intergenic
ATTCAACAGGAAGTGGATGA+TGG 0.555748 8:-71285580 MsaT045315.1:CDS
TAGCGTGTTCACCTCTAAGA+AGG 0.556066 8:-71285161 MsaT045315.1:CDS
GAAGAAAAGACATCATGCAT+AGG 0.556171 8:+71287211 None:intergenic
TTGATGCGTTTGTTTGATGT+AGG 0.559764 8:+71287442 None:intergenic
TGTGGATTGTTGACGGCTTG+CGG 0.563674 8:+71285726 None:intergenic
TTGGCTAAAAGCTTCGGGAA+TGG 0.564675 8:-71285109 MsaT045315.1:CDS
AGAATCTCTGGCGACAAAGT+GGG 0.566207 8:+71287251 None:intergenic
TCAAGTAACATGTTGAGTAA+TGG 0.571263 8:-71285688 MsaT045315.1:CDS
GTTCACCTCTAAGAAGGATG+TGG 0.574677 8:-71285155 MsaT045315.1:CDS
GTATGGACCTTACTGGGCAA+TGG 0.575352 8:+71285301 None:intergenic
GTAGGTTCAGCACCCTCAAG+TGG 0.578222 8:-71285193 MsaT045315.1:CDS
TGGTCATATTTCCATGAGGA+TGG 0.580674 8:+71286307 None:intergenic
AGCAAAACATTTCAATCTGG+TGG 0.582593 8:-71285820 MsaT045315.1:CDS
TGCAGCAATCAATTTGTGCA+GGG 0.587281 8:+71287329 None:intergenic
GCACGCTGGACTTCCGACAC+AGG 0.591609 8:+71285910 None:intergenic
AGTAACATGTTGAGTAATGG+TGG 0.593885 8:-71285685 MsaT045315.1:CDS
GGGAGAGAAAAGGCAAAGTA+GGG 0.594053 8:-71285392 MsaT045315.1:CDS
GGAATGGCAAGCAGCCAAGA+TGG 0.603129 8:+71284698 None:intergenic
GCAAGCAGCCAAGATGGTAT+GGG 0.603934 8:+71284704 None:intergenic
CGCAAGTGCTGTATTTGCGA+TGG 0.604447 8:-71286258 MsaT045315.1:CDS
GAACATTACGCAGGGCACGC+TGG 0.605204 8:+71285896 None:intergenic
TTGGGCTACACCGTTCCTGA+AGG 0.607395 8:-71286165 MsaT045315.1:CDS
CGTGAACGATGTTGTCAAGT+CGG 0.608768 8:-71284556 MsaT045315.1:CDS
GCATTTCTTTCATTGTGACA+GGG 0.609228 8:+71285256 None:intergenic
AAACCAATCACCTTCAGGAA+CGG 0.610160 8:+71286155 None:intergenic
ATAATTAGCATTAGTCTCCA+GGG 0.614978 8:+71286113 None:intergenic
GAAATGCCTCAAAGGAACAA+AGG 0.615422 8:-71285240 MsaT045315.1:CDS
CCAAGTGGTTAGAAGACCAA+TGG 0.619603 8:-71286013 MsaT045315.1:CDS
TCTCTAGCACCACTGCATGA+GGG 0.624636 8:+71285556 None:intergenic
AGCAGCCAAGATGGTATGGG+TGG 0.626338 8:+71284707 None:intergenic
ACCATCTTAAATATTGTGAG+AGG 0.626569 8:-71286045 MsaT045315.1:CDS
GCAAAGTAGGGTCTTGTGTG+AGG 0.638155 8:-71285380 MsaT045315.1:CDS
TAAAGGAATATCAGAAGACA+AGG 0.638369 8:+71285966 None:intergenic
AGCTTGGAAAATGATGCGTA+AGG 0.638683 8:-71285641 MsaT045315.1:CDS
GAAGCAGTTGAACATTACGC+AGG 0.639695 8:+71285887 None:intergenic
TACTCATTTAGAAGGATACA+GGG 0.641504 8:-71285329 MsaT045315.1:CDS
AAACCTTCAAGGTAGTTGCA+AGG 0.642576 8:-71284734 MsaT045315.1:CDS
CGAAGGTAAGAAACCTGTGT+CGG 0.644076 8:-71285923 MsaT045315.1:CDS
GATAGGGTGAGCAGATCCGA+AGG 0.646279 8:-71285940 MsaT045315.1:CDS
ACAAAATGTTGAGCTAAAAG+CGG 0.648538 8:-71286079 MsaT045315.1:CDS
GATGATGGTCCCTCATGCAG+TGG 0.659027 8:-71285565 MsaT045315.1:CDS
AAGCAGTTGAACATTACGCA+GGG 0.660055 8:+71285888 None:intergenic
ACTGAAGAAGAAGACGACAA+TGG 0.660894 8:-71287406 MsaT045315.1:CDS
CCTCATGGAAATATGACCAG+TGG 0.662971 8:-71286303 MsaT045315.1:CDS
TGATTGAGCACGTTGGACTG+TGG 0.664126 8:+71285708 None:intergenic
TGTTACTTGATTGAGCACGT+TGG 0.679662 8:+71285701 None:intergenic
TTAGATTCTGGGCAACTACG+AGG 0.687829 8:+71285520 None:intergenic
TTTGTTTGATGTAGGCAACG+AGG 0.700541 8:+71287450 None:intergenic
GGAATTTGCTACATCGAACG+CGG 0.706610 8:-71287361 MsaT045315.1:CDS
AGGAATCTTAACATCCCGTG+AGG 0.714302 8:+71287189 None:intergenic
GAGAGGAACAGGCAGCCAAG+TGG 0.718089 8:-71286028 MsaT045315.1:CDS
AATAACCAAGATGTTTGCTG+TGG 0.733108 8:-71287382 MsaT045315.1:CDS
CCACTGGTCATATTTCCATG+AGG 0.735026 8:+71286303 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 71284530 71287479 71284530 ID=MsaG045315
Chr8 mRNA 71284530 71287479 71284530 ID=MsaT045315.1;Parent=MsaG045315
Chr8 exon 71284530 71284762 71284530 ID=MsaT045315.1.exon3;Parent=MsaT045315.1
Chr8 CDS 71284530 71284762 71284530 ID=cds.MsaT045315.1;Parent=MsaT045315.1
Chr8 exon 71285020 71286334 71285020 ID=MsaT045315.1.exon2;Parent=MsaT045315.1
Chr8 CDS 71285020 71286334 71285020 ID=cds.MsaT045315.1;Parent=MsaT045315.1
Chr8 exon 71287177 71287479 71287177 ID=MsaT045315.1.exon1;Parent=MsaT045315.1
Chr8 CDS 71287177 71287479 71287177 ID=cds.MsaT045315.1;Parent=MsaT045315.1
Gene Sequence

>MsaT045315.1

ATGTCGACCTCGTTGCCTACATCAAACAAACGCATCAAAACCGAAGTGAAAACTGAAGAAGAAGACGACAATGGCAATAACCAAGATGTTTGCTGTGGAATTTGCTACATCGAACGCGGAATTTCAGTCCCTGCACAAATTGATTGCTGCAACCATTATTTTTGCTTCGTTTGCATCATGGAATGGGCCAAACATGAATCTCGATGCCCACTTTGTCGCCAGAGATTCTCAAACGTTCGTAGACTCCCTATGCATGATGTCTTTTCTTCCTCACGGGATGTTAAGATTCCTATTCGCGATCAGGTTTACCATCCTCATGGAAATATGACCAGTGGTCCTGTTGATTCTAATGCTGAACGCAAGTGCTGTATTTGCGATGGTGCGAAAGATGAAAACCTTATACTAATATGTGATCTTTGTGATACTGTTTCACATACGTTTTGTGTTGGATTGGGCTACACCGTTCCTGAAGGTGATTGGTTTTGTCATGATTGTGCTGTTTCCCTGGAGACTAATGCTAATTATATGCTGGACCAACAAAATGTTGAGCTAAAAGCGGCGCCTGATGTAACCATCTTAAATATTGTGAGAGGAACAGGCAGCCAAGTGGTTAGAAGACCAATGGCATCTCCTGTACGACAAAACAATTCCTTGTCTTCTGATATTCCTTTACTTGATAGGGTGAGCAGATCCGAAGGTAAGAAACCTGTGTCGGAAGTCCAGCGTGCCCTGCGTAATGTTCAACTGCTTCGTGAAAATTGGAATTCTTTAAGAAGTGGTAAATTAAGGTTCCATAGCAAAACATTTCAATCTGGTGGTACAAGTAGTCAAACAGAAAATTCTAGTTCTTTATCAAGTGGCAAATTAGATGATTCACATTCAATGGCTTCCGCAAGCCGTCAACAATCCACAGTCCAACGTGCTCAATCAAGTAACATGTTGAGTAATGGTGGTTTGAAAGATGACGTTGACAAAGCTTGGAAAATGATGCGTAAGGCAAAGACGATGCAACAGACTCCTAGAAGAACAAGTAGAATTCAACAGGAAGTGGATGATGGTCCCTCATGCAGTGGTGCTAGAGAAAAATCATTTTCACCTCGTAGTTGCCCAGAATCTAAAAAACAACAACCCAGAACATTAGACTTTATGTACGCCAAAATGCAGGAGAAGTGTGACTACTCTTGTCCCCCAAAAAATTTGGAAAATCATCGGTCTCCGATGTTGGGAGAGAAAAGGCAAAGTAGGGTCTTGTGTGAGGAGAAGATACAACATTTGAGAAACCATAATACTCATTTAGAAGGATACAGGGAACGTCCATTGCCCAGTAAGGTCCATACTAGTAGTAGTGCCCACAAAGCTCCCTGTCACAATGAAAGAAATGCCTCAAAGGAACAAAGGCAGTCTGCTTACTTGGTAACTTCAGTAGGTTCAGCACCCTCAAGTGGAAAATCTAGTAGCGTGTTCACCTCTAAGAAGGATGTGGATATTTTCAATAAAGAAAAGAGGTTGGCTAAAAGCTTCGGGAATGGAATCACAAAAAATACTGAAGATGCAAAAACAGAGATCCAATCTCTTGTTAAACTAAATTTGAATTGCTTAGCTATCAATAAACAATTAGGTGTCGAAACCTTCAAGGTAGTTGCAAGGCAAGCCACCCATACCATCTTGGCTGCTTGCCATTCCGAGCAGCAAAAGTCTAATATATATTCCTCGAACTCAGTATGCAGCCATACTGACCATAATCTTCAGTTTCAGAAGTCTAATTTAATGCCCAATTGTTGCCGGCAATGCTTTCATGTCTTCGTGAACGATGTTGTCAAGTCGGTGTTGGAAAAAGTGGGCTGTTCTTGA
Protein sequence

>MsaT045315.1

MSTSLPTSNKRIKTEVKTEEEDDNGNNQDVCCGICYIERGISVPAQIDCCNHYFCFVCIMEWAKHESRCPLCRQRFSNVRRLPMHDVFSSSRDVKIPIRDQVYHPHGNMTSGPVDSNAERKCCICDGAKDENLILICDLCDTVSHTFCVGLGYTVPEGDWFCHDCAVSLETNANYMLDQQNVELKAAPDVTILNIVRGTGSQVVRRPMASPVRQNNSLSSDIPLLDRVSRSEGKKPVSEVQRALRNVQLLRENWNSLRSGKLRFHSKTFQSGGTSSQTENSSSLSSGKLDDSHSMASASRQQSTVQRAQSSNMLSNGGLKDDVDKAWKMMRKAKTMQQTPRRTSRIQQEVDDGPSCSGAREKSFSPRSCPESKKQQPRTLDFMYAKMQEKCDYSCPPKNLENHRSPMLGEKRQSRVLCEEKIQHLRNHNTHLEGYRERPLPSKVHTSSSAHKAPCHNERNASKEQRQSAYLVTSVGSAPSSGKSSSVFTSKKDVDIFNKEKRLAKSFGNGITKNTEDAKTEIQSLVKLNLNCLAINKQLGVETFKVVARQATHTILAACHSEQQKSNIYSSNSVCSHTDHNLQFQKSNLMPNCCRQCFHVFVNDVVKSVLEKVGCS*