AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039257

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039257 MtrunA17_Chr7g0256351 93.600 375 24 0 26 400 5 379 0.0 734
MsaG039257 MtrunA17_Chr6g0488451 73.458 373 88 3 27 399 2 363 0.0 553
MsaG039257 MtrunA17_Chr6g0488431 59.821 112 40 1 25 136 2 108 3.87e-41 141
MsaG039257 MtrunA17_Chr6g0488421 44.715 123 42 1 146 268 22 118 5.02e-26 110
MsaG039257 MtrunA17_Chr6g0488421 65.909 44 15 0 291 334 331 374 1.42e-11 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039257 AT5G56780.1 42.287 376 178 9 34 399 23 369 2.18e-89 278
MsaG039257 AT5G56770.1 42.515 167 72 4 30 195 58 201 5.70e-34 127

Find 111 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCACAACCTTCCTCAGAAAT+TGG 0.157069 7:+86676551 MsaT039257.1:CDS
CTACATCATGGCTGGCATTT+TGG 0.209063 7:-86678117 None:intergenic
AACGGGAAGGTCATTGTTTC+AGG 0.214002 7:+86676773 MsaT039257.1:CDS
TTCTCCTCCCTTTATGTTCC+TGG 0.242712 7:-86678267 None:intergenic
GGCAGCTTGCTTGATTTAAT+TGG 0.245613 7:-86677791 None:intergenic
CCGATGGTTCTATTTGTAAA+AGG 0.246592 7:+86677969 MsaT039257.1:CDS
AGCTGTGTCGCGTAGTAATC+TGG 0.263388 7:+86676599 MsaT039257.1:CDS
GCTTCCCAATTGTTTATAGA+TGG 0.289991 7:+86676811 MsaT039257.1:CDS
TTGGTATCCCCACTTTCCTC+TGG 0.290433 7:-86677772 None:intergenic
GATTCCACACATAATGGTTT+TGG 0.295658 7:-86678188 None:intergenic
ATTCTCATTCCTTTGTGTTC+AGG 0.303340 7:-86678019 None:intergenic
CAAGATGATTCCACACATAA+TGG 0.329184 7:-86678194 None:intergenic
TGTAGAAGACAACCGGTTAA+AGG 0.332466 7:+86678232 MsaT039257.1:CDS
CTTGGGTGATCTGATTGCTT+TGG 0.351144 7:-86678056 None:intergenic
GGCATTTCACAACTTGCTTC+GGG 0.351871 7:+86675571 MsaT039257.1:CDS
GCATTGTAGGTAATGCTTAT+AGG 0.363449 7:+86678092 MsaT039257.1:CDS
TTCTTATCGGTCCTTCTGAT+TGG 0.365524 7:+86676484 MsaT039257.1:CDS
TCAGAATTAGAAAGCATTGT+AGG 0.383504 7:+86678079 MsaT039257.1:CDS
TGGCATTTCACAACTTGCTT+CGG 0.391389 7:+86675570 MsaT039257.1:CDS
GGTGAAAGGTAGAAGCAATT+TGG 0.393179 7:-86677750 None:intergenic
AAAAGGTGCCAGGAACATAA+AGG 0.395561 7:+86678259 MsaT039257.1:CDS
GGAGCCCATCTATAAACAAT+TGG 0.397811 7:-86676816 None:intergenic
AACCGGTTAAAGGAAGAAAA+AGG 0.410668 7:+86678242 MsaT039257.1:CDS
CATGAGAATGCTAAAATTTG+CGG 0.413022 7:+86677935 MsaT039257.1:CDS
CGCATAGTTGTGGTTTACCT+TGG 0.418108 7:+86676657 MsaT039257.1:CDS
GCCTCTGACAGATGACAAAC+TGG 0.430967 7:+86677811 MsaT039257.1:CDS
CACAACCTTCCTCAGAAATT+GGG 0.434094 7:+86676552 MsaT039257.1:CDS
CCCGTGTGTTCAAATTAAAC+AGG 0.435752 7:+86677867 MsaT039257.1:CDS
TCTTATCGGTCCTTCTGATT+GGG 0.443716 7:+86676485 MsaT039257.1:CDS
GCAGCTGAGATTCTGTTCTC+AGG 0.444652 7:-86677613 None:intergenic
GTCACGTCCTAGGATAGTTC+AGG 0.452457 7:+86677889 MsaT039257.1:CDS
GTGGAGGGTCTTCTACATCA+TGG 0.463412 7:-86678129 None:intergenic
CTTCCCAATTGTTTATAGAT+GGG 0.464946 7:+86676812 MsaT039257.1:CDS
GGGTGATCTGATTGCTTTGG+CGG 0.466767 7:-86678053 None:intergenic
AGAGCAAGACTCCAGCGTTA+TGG 0.467691 7:+86676696 MsaT039257.1:CDS
CCTTCCTCAGAAATTGGGTC+CGG 0.470635 7:+86676557 MsaT039257.1:CDS
TGACTCTTAACCATTCTTTG+TGG 0.474955 7:-86678148 None:intergenic
GGAAGACTATTCCAAAGAAA+AGG 0.474965 7:+86676506 MsaT039257.1:CDS
AAGGTTGTGAATCCTGTATC+TGG 0.479106 7:-86676538 None:intergenic
AGCATTTGAAGAATATCATC+AGG 0.480750 7:-86677686 None:intergenic
AAGACAGCGCAAGTGAATAA+TGG 0.486076 7:+86675680 MsaT039257.1:intron
AGGAAGGATCTACCAGATAC+AGG 0.491164 7:+86676526 MsaT039257.1:CDS
AATTAAACAGGTCACGTCCT+AGG 0.491462 7:+86677879 MsaT039257.1:CDS
CATTATGTGTGGAATCATCT+TGG 0.495040 7:+86678195 MsaT039257.1:CDS
ATGCTCAACAAATTAGCTTC+AGG 0.496009 7:+86677704 MsaT039257.1:CDS
CTCCAGCGTTATGGCAGGAA+TGG 0.496259 7:+86676705 MsaT039257.1:CDS
TGGCAAGCTTGTAAATTTCA+CGG 0.499268 7:-86676623 None:intergenic
CTTCCTCAGAAATTGGGTCC+GGG 0.499654 7:+86676558 MsaT039257.1:CDS
CCCACTTTCCTCTGGGTGAA+AGG 0.500019 7:-86677764 None:intergenic
AATGCTTTCTAATTCTGACT+TGG 0.501548 7:-86678074 None:intergenic
TGGTATCCCCACTTTCCTCT+GGG 0.502512 7:-86677771 None:intergenic
ATGCTTTCTAATTCTGACTT+GGG 0.502963 7:-86678073 None:intergenic
TCTTAACCATTCTTTGTGGA+GGG 0.504208 7:-86678144 None:intergenic
CTCTTAACCATTCTTTGTGG+AGG 0.504735 7:-86678145 None:intergenic
ATCCACTTGTAGAAGACAAC+CGG 0.506149 7:+86678225 MsaT039257.1:CDS
AGAAGACCCTCCACAAAGAA+TGG 0.506283 7:+86678138 MsaT039257.1:CDS
GAGCCCATCTATAAACAATT+GGG 0.508603 7:-86676815 None:intergenic
TTCTATTTGTAAAAGGCCAC+CGG 0.517076 7:+86677976 MsaT039257.1:CDS
ACCTGTTTAATTTGAACACA+CGG 0.522258 7:-86677868 None:intergenic
GTGGTATCCTGAACTATCCT+AGG 0.522643 7:-86677896 None:intergenic
GATGACTCTTCTCTACGAAC+GGG 0.523910 7:+86676756 MsaT039257.1:CDS
AGGGTCTTCTACATCATGGC+TGG 0.525907 7:-86678125 None:intergenic
AACCGGTTGTCTTCTACAAG+TGG 0.530917 7:-86678227 None:intergenic
TTAGTACATTTGATTATGCA+TGG 0.537544 7:+86677636 MsaT039257.1:CDS
AAAGGTGCCAGGAACATAAA+GGG 0.538956 7:+86678260 MsaT039257.1:CDS
ACCTTTCACCCAGAGGAAAG+TGG 0.539145 7:+86677763 MsaT039257.1:CDS
CAGCTGAGATTCTGTTCTCA+GGG 0.541120 7:-86677612 None:intergenic
CCTTTCACCCAGAGGAAAGT+GGG 0.542001 7:+86677764 MsaT039257.1:CDS
ATGATTCTAGCTTCTCCCAC+TGG 0.543441 7:+86675744 MsaT039257.1:CDS
ACTCCAAGCTCGTACACCCC+CGG 0.547377 7:-86676576 None:intergenic
TTAATTTGAACACACGGGAT+AGG 0.547956 7:-86677862 None:intergenic
TGTGGAATCATCTTGGATGA+TGG 0.551166 7:+86678202 MsaT039257.1:CDS
CAAGACTCCAGCGTTATGGC+AGG 0.554748 7:+86676700 MsaT039257.1:CDS
CTCCATTCCTGCCATAACGC+TGG 0.555122 7:-86676707 None:intergenic
GCTGTGTCGCGTAGTAATCT+GGG 0.557788 7:+86676600 MsaT039257.1:CDS
TTCCTCAGAAATTGGGTCCG+GGG 0.559029 7:+86676559 MsaT039257.1:CDS
TAAAATTTGCGGAGTGATGT+TGG 0.559942 7:+86677946 MsaT039257.1:CDS
GTTAAGAGTCATGTTGATGA+GGG 0.562383 7:+86678160 MsaT039257.1:CDS
TTCTAGCTTCTCCCACTGGA+AGG 0.570084 7:+86675748 MsaT039257.1:CDS
GAATAGTCTTCCCAATCAGA+AGG 0.574116 7:-86676495 None:intergenic
TGACCCTCATCGCATAGTTG+TGG 0.574795 7:+86676647 MsaT039257.1:CDS
GGTTAAGAGTCATGTTGATG+AGG 0.575589 7:+86678159 MsaT039257.1:CDS
CCGGACCCAATTTCTGAGGA+AGG 0.577737 7:-86676557 None:intergenic
AGATGACTCTTCTCTACGAA+CGG 0.578063 7:+86676755 MsaT039257.1:CDS
TCCTCAGAAATTGGGTCCGG+GGG 0.579255 7:+86676560 MsaT039257.1:CDS
TGCGGAGTGATGTTGGCCGA+TGG 0.582561 7:+86677953 MsaT039257.1:CDS
CCTGTTTAATTTGAACACAC+GGG 0.590009 7:-86677867 None:intergenic
AACTATGCGATGAGGGTCAG+TGG 0.590571 7:-86676643 None:intergenic
AGGATAGTTCAGGATACCAC+TGG 0.597133 7:+86677899 MsaT039257.1:CDS
TGATCTGATTGCTTTGGCGG+CGG 0.601310 7:-86678050 None:intergenic
TCCAGTTTGTCATCTGTCAG+AGG 0.601705 7:-86677812 None:intergenic
TGCTTCTACCTTTCACCCAG+AGG 0.610412 7:+86677756 MsaT039257.1:CDS
GACTATTCCAAAGAAAAGGA+AGG 0.610651 7:+86676510 MsaT039257.1:CDS
ATCGCCAAAACCATTATGTG+TGG 0.621653 7:+86678184 MsaT039257.1:CDS
AAACCACAACTATGCGATGA+GGG 0.622038 7:-86676650 None:intergenic
ACACAATCAGCAATGGTACA+CGG 0.633965 7:+86677660 MsaT039257.1:CDS
GCATGGAACACAATCAGCAA+TGG 0.645734 7:+86677653 MsaT039257.1:CDS
TATTGAACAGATGCAAAACG+AGG 0.650690 7:+86677583 MsaT039257.1:intron
AATTGATATGAACCTTCCAG+TGG 0.655241 7:-86675760 None:intergenic
ATTGATATGAACCTTCCAGT+GGG 0.662855 7:-86675759 None:intergenic
TGGTCGTCAACAGATTGAAG+CGG 0.663432 7:+86675700 MsaT039257.1:CDS
ATGAGTGGCACTACCACCAG+TGG 0.671537 7:-86677915 None:intergenic
ACTCTTCTCTACGAACGGGA+AGG 0.673197 7:+86676760 MsaT039257.1:CDS
TAAACCACAACTATGCGATG+AGG 0.681351 7:-86676651 None:intergenic
CTTTCACCCAGAGGAAAGTG+GGG 0.681368 7:+86677765 MsaT039257.1:CDS
ATTGAACAGATGCAAAACGA+GGG 0.682609 7:+86677584 MsaT039257.1:intron
ATAGTTCAGGATACCACTGG+TGG 0.705856 7:+86677902 MsaT039257.1:CDS
GTGAGGTGTCCTGAACACAA+AGG 0.719035 7:+86678010 MsaT039257.1:CDS
GGTGCCAGGAACATAAAGGG+AGG 0.732457 7:+86678263 MsaT039257.1:CDS
AAACTGGATGAAGCTGACAG+TGG 0.772229 7:+86677827 MsaT039257.1:CDS
CAATCAGCAATGGTACACGG+AGG 0.803408 7:+86677663 MsaT039257.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 86675566 86678312 86675566 ID=MsaG039257
Chr7 mRNA 86675566 86678312 86675566 ID=MsaT039257.1;Parent=MsaG039257
Chr7 exon 86675566 86675617 86675566 ID=MsaT039257.1.exon1;Parent=MsaT039257.1
Chr7 CDS 86675566 86675617 86675566 ID=cds.MsaT039257.1;Parent=MsaT039257.1
Chr7 exon 86675687 86675769 86675687 ID=MsaT039257.1.exon2;Parent=MsaT039257.1
Chr7 CDS 86675687 86675769 86675687 ID=cds.MsaT039257.1;Parent=MsaT039257.1
Chr7 exon 86676483 86676839 86676483 ID=MsaT039257.1.exon3;Parent=MsaT039257.1
Chr7 CDS 86676483 86676839 86676483 ID=cds.MsaT039257.1;Parent=MsaT039257.1
Chr7 exon 86677593 86678312 86677593 ID=MsaT039257.1.exon4;Parent=MsaT039257.1
Chr7 CDS 86677593 86678312 86677593 ID=cds.MsaT039257.1;Parent=MsaT039257.1
Gene Sequence

>MsaT039257.1

ATGATGGCATTTCACAACTTGCTTCGGGTTTTGAATGAAGAATCTAATTCAACGCAAGTGAATAATGGTCGTCAACAGATTGAAGCGGAGCAATGTGACCGAACAAAACATGATTCTAGCTTCTCCCACTGGAAGATTCTTATCGGTCCTTCTGATTGGGAAGACTATTCCAAAGAAAAGGAAGGATCTACCAGATACAGGATTCACAACCTTCCTCAGAAATTGGGTCCGGGGGTGTACGAGCTTGGAGTAGCTGTGTCGCGTAGTAATCTGGGCCGTGAAATTTACAAGCTTGCCACTGACCCTCATCGCATAGTTGTGGTTTACCTTGGAAAAGCTGACAATGTGAGAGCAAGACTCCAGCGTTATGGCAGGAATGGAGCTCATTTGAATAACACTTGTATGTCAGATGACTCTTCTCTACGAACGGGAAGGTCATTGTTTCAGGAGATATTTTCACAAGGCTTCCCAATTGTTTATAGATGGGCTCCTATGCAAAACGAGGGAGATGCCCTGAGAACAGAATCTCAGCTGCTTAGTACATTTGATTATGCATGGAACACAATCAGCAATGGTACACGGAGGCCTGATGATATTCTTCAAATGCTCAACAAATTAGCTTCAGGCACTAGAACATTTTCAGATGTGGCCAAATTGCTTCTACCTTTCACCCAGAGGAAAGTGGGGATACCAATTAAATCAAGCAAGCTGCCTCTGACAGATGACAAACTGGATGAAGCTGACAGTGGCAGCTACAACGTCCTATCCCGTGTGTTCAAATTAAACAGGTCACGTCCTAGGATAGTTCAGGATACCACTGGTGGTAGTGCCACTCATGAGAATGCTAAAATTTGCGGAGTGATGTTGGCCGATGGTTCTATTTGTAAAAGGCCACCGGTTGAAAAAAGAGTGAGGTGTCCTGAACACAAAGGAATGAGAATAAATGCGTCCGCCGCCAAAGCAATCAGATCACCCAAGTCAGAATTAGAAAGCATTGTAGGTAATGCTTATAGGTACCAAAATGCCAGCCATGATGTAGAAGACCCTCCACAAAGAATGGTTAAGAGTCATGTTGATGAGGGTATCGCCAAAACCATTATGTGTGGAATCATCTTGGATGATGGATCCACTTGTAGAAGACAACCGGTTAAAGGAAGAAAAAGGTGCCAGGAACATAAAGGGAGGAGAATTCGTGCAAATTCGAAAAAATAA
Protein sequence

>MsaT039257.1

MMAFHNLLRVLNEESNSTQVNNGRQQIEAEQCDRTKHDSSFSHWKILIGPSDWEDYSKEKEGSTRYRIHNLPQKLGPGVYELGVAVSRSNLGREIYKLATDPHRIVVVYLGKADNVRARLQRYGRNGAHLNNTCMSDDSSLRTGRSLFQEIFSQGFPIVYRWAPMQNEGDALRTESQLLSTFDYAWNTISNGTRRPDDILQMLNKLASGTRTFSDVAKLLLPFTQRKVGIPIKSSKLPLTDDKLDEADSGSYNVLSRVFKLNRSRPRIVQDTTGGSATHENAKICGVMLADGSICKRPPVEKRVRCPEHKGMRINASAAKAIRSPKSELESIVGNAYRYQNASHDVEDPPQRMVKSHVDEGIAKTIMCGIILDDGSTCRRQPVKGRKRCQEHKGRRIRANSKK*