AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG041037

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041037 MtrunA17_Chr8g0335121 94.513 565 30 1 16 580 1 564 0.0 1095
MsaG041037 MtrunA17_Chr7g0249711 56.036 555 229 6 24 572 31 576 0.0 636
MsaG041037 MtrunA17_Chr5g0438661 25.758 528 371 9 45 568 97 607 4.74e-53 191
MsaG041037 MtrunA17_Chr7g0258521 42.667 150 75 3 38 180 29 174 1.29e-24 107
MsaG041037 MtrunA17_Chr7g0258521 25.926 162 117 3 410 570 302 461 7.14e-14 74.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041037 AT3G60400.1 46.691 544 283 3 36 578 17 554 2.19e-178 516
MsaG041037 AT4G19650.2 26.476 525 351 8 54 568 85 584 5.09e-52 188
MsaG041037 AT4G19650.1 25.447 503 340 8 76 568 90 567 1.36e-44 167
MsaG041037 AT5G06810.1 25.285 526 350 13 56 567 78 574 8.03e-40 154
MsaG041037 AT5G06811.1 24.014 583 393 12 15 567 8 570 3.83e-39 151
MsaG041037 AT5G45113.1 22.803 421 295 11 157 568 7 406 2.67e-21 97.1

Find 102 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTGTGTGCTTTGTGAATT+TGG 0.075830 8:-1003649 MsaT041037.1:CDS
TCTCTAGAGTTTCAGGATTT+TGG 0.108976 8:+1002669 None:intergenic
TTTGATTGCCTTCTACATTT+AGG 0.135769 8:-1002746 MsaT041037.1:CDS
TGGAACAGAAATGTCGTTTA+AGG 0.220611 8:+1004666 None:intergenic
GGGACACTCCTTAGAGCTTT+TGG 0.239993 8:-1002618 MsaT041037.1:CDS
TAATTTCCTATGTCAGGATA+TGG 0.244795 8:-1002639 MsaT041037.1:CDS
TCATGAAGCTCGAAATTTAT+TGG 0.254864 8:+1002391 None:intergenic
AAACATTTGATTCTTGAGTA+TGG 0.263491 8:-1003271 MsaT041037.1:CDS
TTGATTGCCTTCTACATTTA+GGG 0.265986 8:-1002745 MsaT041037.1:CDS
GAAAAGTGGTTCTGAGATAA+AGG 0.272746 8:-1003572 MsaT041037.1:CDS
TTAAATTTCATGCATACTAT+TGG 0.285045 8:-1002842 MsaT041037.1:CDS
AATTGCTCAAACCAATGTTT+TGG 0.304518 8:+1002419 None:intergenic
CTTTGTTTGTTGAAAAGATA+TGG 0.308280 8:-1003544 MsaT041037.1:CDS
CATGAAGCTCGAAATTTATT+GGG 0.313412 8:+1002392 None:intergenic
CTCTAATCTCATTTCAAAGT+TGG 0.326018 8:-1004477 MsaT041037.1:CDS
ACCTTTATCATGCTCTTCAT+TGG 0.329479 8:+1002925 None:intergenic
TTCATGCATACTATTGGCTT+TGG 0.365567 8:-1002836 MsaT041037.1:CDS
CATGTGATTTAAGATATTCA+TGG 0.366992 8:+1002799 None:intergenic
CCCAATGAAGAGCATGATAA+AGG 0.371844 8:-1002926 MsaT041037.1:CDS
ATCTGAACCTCGGCTTAATT+CGG 0.372746 8:+1002558 None:intergenic
TCTAATCTCATTTCAAAGTT+GGG 0.374378 8:-1004476 MsaT041037.1:CDS
TAAGCTTGGTGTGATTTATA+CGG 0.375925 8:-1003614 MsaT041037.1:CDS
GGAGTTGTTGAGTCTCAATT+TGG 0.376264 8:-1003161 MsaT041037.1:CDS
ATAGGTTGCTTTCTGATTTG+AGG 0.392968 8:-1003432 MsaT041037.1:CDS
CCTTTATCATGCTCTTCATT+GGG 0.406357 8:+1002926 None:intergenic
AAAGATTAATTTCCTATGTC+AGG 0.406425 8:-1002645 MsaT041037.1:CDS
CCATATGTGGGCTTTAGAAA+AGG 0.410319 8:-1002534 MsaT041037.1:CDS
GGGCTATGGGTTTACGTGAA+TGG 0.411227 8:-1003009 MsaT041037.1:CDS
TTATCGATGATGAGGTTGAT+AGG 0.413270 8:-1003450 MsaT041037.1:CDS
ATGTTTGGTATGATGTTTGT+AGG 0.414620 8:-1003360 MsaT041037.1:CDS
TTGTGAATTTGGATTTCCTT+GGG 0.415023 8:-1003638 MsaT041037.1:CDS
AAAAGTGTCCAAAAGCTCTA+AGG 0.419374 8:+1002610 None:intergenic
ATTCAATCCCTAAATGTAGA+AGG 0.419800 8:+1002738 None:intergenic
AGTGATGGTAAGGGGAAGAT+AGG 0.419950 8:-1003313 MsaT041037.1:CDS
ATCTGATCGGCAAAAGCATA+AGG 0.420610 8:+1004524 None:intergenic
TTTGTGAATTTGGATTTCCT+TGG 0.421861 8:-1003639 MsaT041037.1:CDS
GCAACATCACTTTCAATTTG+CGG 0.422663 8:+1004696 None:intergenic
CATATGTGGGCTTTAGAAAA+GGG 0.423473 8:-1002533 MsaT041037.1:CDS
TTCAATTTGCGGTGAAGTGC+AGG 0.426353 8:+1004707 None:intergenic
ACCCATAGCCCTCATCAGAT+TGG 0.427036 8:+1003021 None:intergenic
CCCAATCTGATGAGGGCTAT+GGG 0.435992 8:-1003022 MsaT041037.1:CDS
TTTGTAATGTGCAAATTGTT+GGG 0.448783 8:-1003519 MsaT041037.1:CDS
GATTTGGGAGGGTGTGTTGA+AGG 0.450135 8:-1003391 MsaT041037.1:CDS
AATTTCCTATGTCAGGATAT+GGG 0.450989 8:-1002638 MsaT041037.1:CDS
GGAATGGATTCTAAAGGTCT+TGG 0.453391 8:-1003100 MsaT041037.1:CDS
TCGGTTGATTCTACAAGGTT+CGG 0.454814 8:-1003182 MsaT041037.1:CDS
AAGAACTATGCTCATGCGTT+GGG 0.457899 8:-1003067 MsaT041037.1:CDS
AAAAGTGGTTCTGAGATAAA+GGG 0.465819 8:-1003571 MsaT041037.1:CDS
TTGAAGGGAATGTGGATGTT+TGG 0.467882 8:-1003375 MsaT041037.1:CDS
AGAAGAGGAGTTGATTGAAA+AGG 0.470802 8:-1003248 MsaT041037.1:CDS
GGATTTCCTTGGGATAAGCT+TGG 0.474458 8:-1003628 MsaT041037.1:CDS
CCCATAGCCCTCATCAGATT+GGG 0.475310 8:+1003022 None:intergenic
AAACTATTCCATTGCAAGCA+TGG 0.484064 8:-1002498 MsaT041037.1:CDS
TCCCAATCTGATGAGGGCTA+TGG 0.486736 8:-1003023 MsaT041037.1:CDS
GATTCTTGAGTATGGAGAAG+AGG 0.500875 8:-1003263 MsaT041037.1:CDS
CGAGGTTCAGATTCCATATG+TGG 0.503568 8:-1002547 MsaT041037.1:CDS
ATTTGGGAGGGTGTGTTGAA+GGG 0.510382 8:-1003390 MsaT041037.1:CDS
GAAGAACTATGCTCATGCGT+TGG 0.510932 8:-1003068 MsaT041037.1:CDS
AGCATAAGGGATGGATCTTG+TGG 0.512701 8:+1004538 None:intergenic
TTATGATTTGAGTGATGGTA+AGG 0.517430 8:-1003323 MsaT041037.1:CDS
AGGGTGTGTTGAAGGGAATG+TGG 0.519392 8:-1003383 MsaT041037.1:CDS
GGGAAGATAGGTGAACTCAT+TGG 0.519466 8:-1003301 MsaT041037.1:CDS
ATTTGCGGTGAAGTGCAGGC+AGG 0.520172 8:+1004711 None:intergenic
TAAGGTTGGTGTGATGATGT+TGG 0.525262 8:+1004646 None:intergenic
CACATTGGAATGGATTCTAA+AGG 0.534379 8:-1003106 MsaT041037.1:CDS
ACCCGGCTGCTCCAAAACAT+TGG 0.539925 8:-1002430 MsaT041037.1:CDS
GTTGCTTTCTGATTTGAGGT+TGG 0.540360 8:-1003428 MsaT041037.1:CDS
CGATCAGATGAATGAATGAA+AGG 0.541131 8:-1004745 None:intergenic
CAAGTTTCTTGTGGCGACAA+GGG 0.543532 8:+1004603 None:intergenic
TCTGATCGGCAAAAGCATAA+GGG 0.549804 8:+1004525 None:intergenic
TTAAGGCAATTCATGATGCA+AGG 0.553764 8:-1002889 MsaT041037.1:CDS
GCTGTTGAAACACATTGGAA+TGG 0.554139 8:-1003116 MsaT041037.1:CDS
CGAATCTTCCCAATCTGATG+AGG 0.559311 8:-1003030 MsaT041037.1:CDS
GCAAGTTTCTTGTGGCGACA+AGG 0.559841 8:+1004602 None:intergenic
CATGATAAAGGTTATCAAAG+TGG 0.567037 8:-1002914 MsaT041037.1:CDS
TTTGCGGTGAAGTGCAGGCA+GGG 0.567208 8:+1004712 None:intergenic
TTGTAGATTCAGTGTCGAGA+AGG 0.567935 8:-1003215 MsaT041037.1:CDS
AGTGTCCCATATCCTGACAT+AGG 0.569168 8:+1002633 None:intergenic
AGTCGCAACCATGCTTGCAA+TGG 0.573982 8:+1002490 None:intergenic
GGTGTGATTTATACGGAGAG+TGG 0.575450 8:-1003607 MsaT041037.1:CDS
ATGATTTGAGTGATGGTAAG+GGG 0.577556 8:-1003321 MsaT041037.1:CDS
AATATCTTAAATCACATGCA+TGG 0.582398 8:-1002794 MsaT041037.1:CDS
ATAGCTCGGTTGATTCTACA+AGG 0.584030 8:-1003187 MsaT041037.1:CDS
AATTTACTCATATTGTGAGA+CGG 0.584295 8:+1002863 None:intergenic
TATGATTTGAGTGATGGTAA+GGG 0.587020 8:-1003322 MsaT041037.1:CDS
AAGGGATGGATCTTGTGGAA+TGG 0.590760 8:+1004543 None:intergenic
CATGGTTGCGACTAGTGACA+AGG 0.592546 8:-1002480 MsaT041037.1:CDS
TAGATTCAGTGTCGAGAAGG+AGG 0.595864 8:-1003212 MsaT041037.1:CDS
ATCGGCAAAAGCATAAGGGA+TGG 0.596160 8:+1004529 None:intergenic
GTGACACTGCAAGTTTCTTG+TGG 0.612434 8:+1004594 None:intergenic
TTGAAGCTGTTGAAACACAT+TGG 0.621474 8:-1003121 MsaT041037.1:CDS
GAATCTTCCCAATCTGATGA+GGG 0.621938 8:-1003029 MsaT041037.1:CDS
ATCACACCAAGCTTATCCCA+AGG 0.624221 8:+1003622 None:intergenic
CACATATGGAATCTGAACCT+CGG 0.628454 8:+1002548 None:intergenic
AGATAGGTGAACTCATTGGA+AGG 0.629844 8:-1003297 MsaT041037.1:CDS
AAGTCAAAACATATAAACGC+CGG 0.641278 8:+1002587 None:intergenic
AAAACTCAAACTCATTGATG+GGG 0.654476 8:+1003767 None:intergenic
GTGGTTCTGAGATAAAGGGT+AGG 0.659181 8:-1003567 MsaT041037.1:CDS
TCGAGAAGGAGGAAATAGCT+CGG 0.662293 8:-1003201 MsaT041037.1:CDS
GAGGTTCAGATTCCATATGT+GGG 0.667584 8:-1002546 MsaT041037.1:CDS
TAGAGAACCGAATTAAGCCG+AGG 0.677310 8:-1002565 MsaT041037.1:CDS
ATGGTTGCGACTAGTGACAA+GGG 0.685800 8:-1002479 MsaT041037.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 1002391 1004756 1002391 ID=MsaG041037
Chr8 mRNA 1002391 1004756 1002391 ID=MsaT041037.1;Parent=MsaG041037
Chr8 exon 1002391 1003795 1002391 ID=MsaT041037.1.exon2;Parent=MsaT041037.1
Chr8 CDS 1002391 1003795 1002391 ID=cds.MsaT041037.1;Parent=MsaT041037.1
Chr8 exon 1004419 1004756 1004419 ID=MsaT041037.1.exon1;Parent=MsaT041037.1
Chr8 CDS 1004419 1004756 1004419 ID=cds.MsaT041037.1;Parent=MsaT041037.1
Gene Sequence

>MsaT041037.1

ATGAATGAAAGGAGAAAAGAAACCCTGCCTGCACTTCACCGCAAATTGAAAGTGATGTTGCTGAACAACCTTAAACGACATTTCTGTTCCAACATCATCACACCAACCTTAAACTCCTCAAAAAAGAAAATCCCTTGTCGCCACAAGAAACTTGCAGTGTCACATGCTCAAAAAGCACTCACTGAATATCTCCATTCCACAAGATCCATCCCTTATGCTTTTGCCGATCAGATTTCCAAAAATTCATTTCATTCTCTCTCTAATCTCATTTCAAAGTTGGGTTCTTTTTCACCAAAAAACTTGGATTCTTTCACCAAAAAAGTTGAAAAGTTCTTGAGGTACAACCCCATCAATGAGTTTGAGTTTTTCTTTGAAAGCATTGGAATTCATCATACACGTGTTTCTAGTTTGTTGCCGAACGATAAGTTCTTTTTTTGCGACGATGAATCACTTCTTGATTCTGCTTGTGTGCTTTGTGAATTTGGATTTCCTTGGGATAAGCTTGGTGTGATTTATACGGAGAGTGGTTTTATGTTTAGGAAAAGTGGTTCTGAGATAAAGGGTAGGCTTTGTTTGTTGAAAAGATATGGTTTTTGTAATGTGCAAATTGTTGGGATTTGTTTAACTTTTCCTTTTGTTTTTGGTGCCGAGGAAGGGGGATTTATCGATGATGAGGTTGATAGGTTGCTTTCTGATTTGAGGTTGGTGTTTTTGGATTTTGATTTGGGAGGGTGTGTTGAAGGGAATGTGGATGTTTGGTATGATGTTTGTAGGAAAATTAAAGTGTTTTATGATTTGAGTGATGGTAAGGGGAAGATAGGTGAACTCATTGGAAGGAATAAACATTTGATTCTTGAGTATGGAGAAGAGGAGTTGATTGAAAAGGTTGAGTTTTTTTGTAGATTCAGTGTCGAGAAGGAGGAAATAGCTCGGTTGATTCTACAAGGTTCGGAGTTGTTGAGTCTCAATTTGGAAGCGACGATTAACGTGTTGAAGCTGTTGAAACACATTGGAATGGATTCTAAAGGTCTTGGTGATGTGAAGAAGAACTATGCTCATGCGTTGGGAACAATAAAAATGGCGAATCTTCCCAATCTGATGAGGGCTATGGGTTTACGTGAATGGTTTTTCGATAAAATCAAGGATGGGAATCATAAGCTTTTAGTGGATTTTATCACAAGCTATCCCAATGAAGAGCATGATAAAGGTTATCAAAGTGGTTTTAAGGCAATTCATGATGCAAGGTTACCGTCTCACAATATGAGTAAATTAAATTTCATGCATACTATTGGCTTTGGTGAAAATGCTATAACCATGAATATCTTAAATCACATGCATGGAACAAGTGAAGAGTTACAGAAAAGATTTGATTGCCTTCTACATTTAGGGATTGAATTCTCAAAACTGTGTAAGATAATCACAAAGCTACCAAAGATTCTAAGCCAAAATCCTGAAACTCTAGAGAAAAAGATTAATTTCCTATGTCAGGATATGGGACACTCCTTAGAGCTTTTGGACACTTTTCCGGCGTTTATATGTTTTGACTTAGAGAACCGAATTAAGCCGAGGTTCAGATTCCATATGTGGGCTTTAGAAAAGGGATTGTATTCAAAAAACTATTCCATTGCAAGCATGGTTGCGACTAGTGACAAGGGTTTTGTTGGCCGTGTTTTTAAAATTCACCCGGCTGCTCCAAAACATTGGTTTGAGCAATTCTATCCCAATAAATTTCGAGCTTCATGA
Protein sequence

>MsaT041037.1

MNERRKETLPALHRKLKVMLLNNLKRHFCSNIITPTLNSSKKKIPCRHKKLAVSHAQKALTEYLHSTRSIPYAFADQISKNSFHSLSNLISKLGSFSPKNLDSFTKKVEKFLRYNPINEFEFFFESIGIHHTRVSSLLPNDKFFFCDDESLLDSACVLCEFGFPWDKLGVIYTESGFMFRKSGSEIKGRLCLLKRYGFCNVQIVGICLTFPFVFGAEEGGFIDDEVDRLLSDLRLVFLDFDLGGCVEGNVDVWYDVCRKIKVFYDLSDGKGKIGELIGRNKHLILEYGEEELIEKVEFFCRFSVEKEEIARLILQGSELLSLNLEATINVLKLLKHIGMDSKGLGDVKKNYAHALGTIKMANLPNLMRAMGLREWFFDKIKDGNHKLLVDFITSYPNEEHDKGYQSGFKAIHDARLPSHNMSKLNFMHTIGFGENAITMNILNHMHGTSEELQKRFDCLLHLGIEFSKLCKIITKLPKILSQNPETLEKKINFLCQDMGHSLELLDTFPAFICFDLENRIKPRFRFHMWALEKGLYSKNYSIASMVATSDKGFVGRVFKIHPAAPKHWFEQFYPNKFRAS*