AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG021271

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG021271 MtrunA17_Chr4g0036971 97.378 267 7 0 1 267 1 267 0.0 546
MsaG021271 MtrunA17_Chr3g0090531 41.584 202 94 4 1 197 1 183 6.62e-35 124
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG021271 AT2G16770.2 61.798 267 82 6 1 266 1 248 2.56e-110 318
MsaG021271 AT2G16770.1 61.798 267 82 6 1 266 1 248 2.56e-110 318
MsaG021271 AT4G35040.1 63.838 271 82 8 1 266 1 260 4.13e-110 318
MsaG021271 AT4G35040.4 63.838 271 82 8 1 266 1 260 4.13e-110 318
MsaG021271 AT4G35040.2 63.838 271 82 8 1 266 1 260 4.13e-110 318
MsaG021271 AT4G35040.3 63.838 271 82 8 1 266 1 260 4.13e-110 318
MsaG021271 AT3G51960.3 54.478 134 54 3 39 171 13 140 2.35e-45 151
MsaG021271 AT3G51960.2 54.478 134 54 3 39 171 52 179 4.65e-45 152
MsaG021271 AT3G51960.1 52.239 134 56 2 39 171 52 178 1.44e-43 148

Find 79 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGAGGATTGAAGGGGAAAT+TGG 0.206995 4:-64324682 MsaT021271.1:CDS
CCCAATCGGTCGCTTCTTAC+TGG 0.244484 4:+64324879 None:intergenic
GTGTTTGTTGGTTGATATTA+GGG 0.255056 4:-64324704 MsaT021271.1:CDS
GATCCTTGAGCCCCAAATTC+TGG 0.270466 4:+64324458 None:intergenic
AGTGTTTGTTGGTTGATATT+AGG 0.273430 4:-64324705 MsaT021271.1:CDS
GTGTATGGGAGGCCAGAATT+TGG 0.299733 4:-64324470 MsaT021271.1:CDS
TGTATGGGAGGCCAGAATTT+GGG 0.316343 4:-64324469 MsaT021271.1:CDS
GTTGCAAGGGCAGGCTGCTT+TGG 0.335855 4:-64324749 MsaT021271.1:CDS
ATATATTATTCATCCGGCTT+TGG 0.355641 4:+64323514 None:intergenic
GTTTGAAATTCAGCCATGTT+TGG 0.367715 4:+64325096 None:intergenic
CTCAAGGATCTTCGTGGTTG+TGG 0.376487 4:-64324445 MsaT021271.1:CDS
GGAGGATTGAAGGGGAAATT+GGG 0.382575 4:-64324681 MsaT021271.1:CDS
ATTTCAAACAAGTGGTTCAA+TGG 0.405614 4:-64325082 MsaT021271.1:CDS
GTTTGAGAGTCTCCAGTGTA+TGG 0.417641 4:-64324485 MsaT021271.1:CDS
TGCGAGGTTGAAGTGTTTGT+TGG 0.420725 4:-64324716 MsaT021271.1:CDS
CCGAATGAGGATGGATTTGA+TGG 0.424009 4:-64324514 MsaT021271.1:CDS
GCAAGGGCAGGCTGCTTTGG+AGG 0.426440 4:-64324746 MsaT021271.1:CDS
GGCTGCGTCGTTGGAGGATG+AGG 0.428168 4:-64324812 MsaT021271.1:CDS
TCATCACACTGCACATTACA+AGG 0.429810 4:+64324589 None:intergenic
CAACTTATATATTATTCATC+CGG 0.437000 4:+64323508 None:intergenic
GATCTTCGTGGTTGTGGAGG+TGG 0.440100 4:-64324439 MsaT021271.1:CDS
TCAGCAGCAATCTTCCCATC+TGG 0.456534 4:+64324547 None:intergenic
ACCGCCTCTTTATTCCCAAT+CGG 0.469540 4:+64324865 None:intergenic
TCCAGTAAGAAGCGACCGAT+TGG 0.474062 4:-64324880 MsaT021271.1:CDS
ACATTCGCGGGTTTCTGATA+CGG 0.475335 4:+64324652 None:intergenic
GAAAGCTAGGGCTGCGTCGT+TGG 0.478279 4:-64324821 MsaT021271.1:CDS
GGGTCTCGTGCAGCCAAAGC+CGG 0.486937 4:-64323527 MsaT021271.1:CDS
CCATCAAATCCATCCTCATT+CGG 0.488283 4:+64324514 None:intergenic
AGCTAGGGCTGCGTCGTTGG+AGG 0.489293 4:-64324818 MsaT021271.1:CDS
CTGCTGAAGATGATCAGGTT+GGG 0.489651 4:-64324936 MsaT021271.1:CDS
AGGCCAGAATTTGGGGCTCA+AGG 0.491612 4:-64324461 MsaT021271.1:CDS
CAAGCTTCCAGTAAAAGAAA+AGG 0.495698 4:-64324391 MsaT021271.1:intron
ATCTTCAGCAGGGACAATCT+TGG 0.499105 4:+64324948 None:intergenic
TTGGGGCTCAAGGATCTTCG+TGG 0.500226 4:-64324451 MsaT021271.1:CDS
GGGTTCATCACATGAGAGCC+AGG 0.513240 4:+64324610 None:intergenic
GCATATTGCCTTCGTCCAGA+TGG 0.514127 4:-64324562 MsaT021271.1:CDS
TGTCCCTGCTGAAGATGATC+AGG 0.516014 4:-64324941 MsaT021271.1:CDS
CCAGTAAGAAGCGACCGATT+GGG 0.517346 4:-64324879 MsaT021271.1:CDS
ATCGTGAGAAGAAGAAAGCT+AGG 0.518063 4:-64324834 MsaT021271.1:CDS
TAATGTGCAGTGTGATGATC+GGG 0.521659 4:-64324584 MsaT021271.1:CDS
CTTTGGAGGCCGAAGTTGCG+AGG 0.525689 4:-64324732 MsaT021271.1:CDS
CCAACCTGATCATCTTCAGC+AGG 0.525807 4:+64324937 None:intergenic
GATGAGGAAGTTGCAAGGGC+AGG 0.525833 4:-64324758 MsaT021271.1:CDS
AGGATGAGGTCATGAAATTG+AGG 0.534541 4:-64324798 MsaT021271.1:CDS
ATCGCGGGATTCACATTCGC+GGG 0.538798 4:+64324640 None:intergenic
CATATTGCCTTCGTCCAGAT+GGG 0.548979 4:-64324561 MsaT021271.1:CDS
AATTCTGGCCTCCCATACAC+TGG 0.551814 4:+64324473 None:intergenic
ATGGCTGAATTTCAAACAAG+TGG 0.554218 4:-64325090 MsaT021271.1:CDS
GTGGCGTCGCCGAATGAGGA+TGG 0.554803 4:-64324523 MsaT021271.1:CDS
GACCAGGTGGGTTACACGTG+TGG 0.559695 4:+64325010 None:intergenic
AATCCCGCGATGAATTTGCC+TGG 0.562632 4:-64324628 MsaT021271.1:CDS
ACACTTCAACCTCGCAACTT+CGG 0.570082 4:+64324723 None:intergenic
GTTTGTTGGTTGATATTAGG+GGG 0.578395 4:-64324702 MsaT021271.1:CDS
GGATGAGGTCATGAAATTGA+GGG 0.578672 4:-64324797 MsaT021271.1:CDS
ACACGTGTGGGTATGAGTAC+AGG 0.580524 4:+64325023 None:intergenic
TGTTTGTTGGTTGATATTAG+GGG 0.581606 4:-64324703 MsaT021271.1:CDS
GTAATGTGCAGTGTGATGAT+CGG 0.581966 4:-64324585 MsaT021271.1:CDS
TTTGAGAGTCTCCAGTGTAT+GGG 0.588557 4:-64324484 MsaT021271.1:CDS
GTATGGGAGGCCAGAATTTG+GGG 0.595109 4:-64324468 MsaT021271.1:CDS
ATTTGATGAGGAAGTTGCAA+GGG 0.596253 4:-64324762 MsaT021271.1:CDS
TGAAGTGGCGTCGCCGAATG+AGG 0.598815 4:-64324527 MsaT021271.1:CDS
CATCGCGGGATTCACATTCG+CGG 0.599241 4:+64324639 None:intergenic
AAGGATCTTCGTGGTTGTGG+AGG 0.602836 4:-64324442 MsaT021271.1:CDS
CATTTGATGAGGAAGTTGCA+AGG 0.604562 4:-64324763 MsaT021271.1:CDS
ACCCACACGTGTAACCCACC+TGG 0.607124 4:-64325012 MsaT021271.1:CDS
ACCAGGTGGGTTACACGTGT+GGG 0.610384 4:+64325011 None:intergenic
GAGCCAGGCAAATTCATCGC+GGG 0.610422 4:+64324625 None:intergenic
TCGTGAGAAGAAGAAAGCTA+GGG 0.612179 4:-64324833 MsaT021271.1:CDS
TGGGAAGATTGCTGCTGAAG+TGG 0.614233 4:-64324542 MsaT021271.1:CDS
CTTTGAATCAGCATTTGATG+AGG 0.616238 4:-64324774 MsaT021271.1:CDS
CAATCTTCCCATCTGGACGA+AGG 0.622375 4:+64324554 None:intergenic
CCTGCTGAAGATGATCAGGT+TGG 0.627520 4:-64324937 MsaT021271.1:CDS
GAGAGTCTCCAGTGTATGGG+AGG 0.629740 4:-64324481 MsaT021271.1:CDS
GCGACCGATTGGGAATAAAG+AGG 0.631196 4:-64324869 MsaT021271.1:CDS
CAACCTGATCATCTTCAGCA+GGG 0.684116 4:+64324938 None:intergenic
ACCGATTGGGAATAAAGAGG+CGG 0.690479 4:-64324866 MsaT021271.1:CDS
CATCACACTGCACATTACAA+GGG 0.696358 4:+64324590 None:intergenic
AGAGCCAGGCAAATTCATCG+CGG 0.740100 4:+64324624 None:intergenic
GAATTGACATTAGACAACGT+CGG 0.759673 4:+64324415 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 64323523 64325166 64323523 ID=MsaG021271
Chr4 mRNA 64323523 64325166 64323523 ID=MsaT021271.1;Parent=MsaG021271
Chr4 exon 64323523 64323551 64323523 ID=MsaT021271.1.exon2;Parent=MsaT021271.1
Chr4 CDS 64323523 64323551 64323523 ID=cds.MsaT021271.1;Parent=MsaT021271.1
Chr4 exon 64324392 64325166 64324392 ID=MsaT021271.1.exon1;Parent=MsaT021271.1
Chr4 CDS 64324392 64325166 64324392 ID=cds.MsaT021271.1;Parent=MsaT021271.1
Gene Sequence

>MsaT021271.1

ATGGAAGACGGTGAACTTGATTTCTCAAATCAAGTCGTGTTTTCGAGTCCAAACATGGCTGAATTTCAAACAAGTGGTTCAATGGATAGTTTTTTTGATGAATTGTTGAAGGATACACACGCCTGTACTCATACCCACACGTGTAACCCACCTGGTCCTGATTTTTCACACACTCACACGTGTTATCATGTTCACACCAAGATTGTCCCTGCTGAAGATGATCAGGTTGGGACTGATGATACTGCTGAATCTGCTGAGAAGAAGTCCAGTAAGAAGCGACCGATTGGGAATAAAGAGGCGGTTAAGAAGTATCGTGAGAAGAAGAAAGCTAGGGCTGCGTCGTTGGAGGATGAGGTCATGAAATTGAGGGCTTTGAATCAGCATTTGATGAGGAAGTTGCAAGGGCAGGCTGCTTTGGAGGCCGAAGTTGCGAGGTTGAAGTGTTTGTTGGTTGATATTAGGGGGAGGATTGAAGGGGAAATTGGGTCGTTTCCGTATCAGAAACCCGCGAATGTGAATCCCGCGATGAATTTGCCTGGCTCTCATGTGATGAACCCTTGTAATGTGCAGTGTGATGATCGGGCATATTGCCTTCGTCCAGATGGGAAGATTGCTGCTGAAGTGGCGTCGCCGAATGAGGATGGATTTGATGGTTGTGAGTTTGAGAGTCTCCAGTGTATGGGAGGCCAGAATTTGGGGCTCAAGGATCTTCGTGGTTGTGGAGGTGGACCGACGTTGTCTAATGTCAATTCTCAAGCTTCCAGTAAAAGAAAAGGGGGGTCTCGTGCAGCCAAAGCCGGATGA
Protein sequence

>MsaT021271.1

MEDGELDFSNQVVFSSPNMAEFQTSGSMDSFFDELLKDTHACTHTHTCNPPGPDFSHTHTCYHVHTKIVPAEDDQVGTDDTAESAEKKSSKKRPIGNKEAVKKYREKKKARAASLEDEVMKLRALNQHLMRKLQGQAALEAEVARLKCLLVDIRGRIEGEIGSFPYQKPANVNPAMNLPGSHVMNPCNVQCDDRAYCLRPDGKIAAEVASPNEDGFDGCEFESLQCMGGQNLGLKDLRGCGGGPTLSNVNSQASSKRKGGSRAAKAG*