AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0620460


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0620460 MtrunA17_Chr5g0393971 93.803 468 9 2 1 448 1 468 0.0 866
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0620460 AT4G27630.2 80.300 467 73 2 1 448 1 467 0.0 710
Msa0620460 AT1G64990.1 79.060 468 78 2 1 448 1 468 0.0 704
Msa0620460 AT1G64990.2 79.060 468 78 2 1 448 1 468 0.0 704
Msa0620460 AT4G27630.3 76.375 491 73 3 1 448 1 491 0.0 696
Msa0620460 AT4G27630.7 76.944 373 67 2 1 354 1 373 0.0 581
Msa0620460 AT4G27630.4 76.944 373 67 2 1 354 1 373 0.0 579
Msa0620460 AT4G27630.6 81.682 333 52 1 125 448 16 348 1.46e-176 498
Msa0620460 AT4G27630.1 81.682 333 52 1 125 448 16 348 1.46e-176 498
Msa0620460 AT4G27630.5 76.987 239 46 1 125 354 16 254 3.04e-126 367

Find 118 sgRNAs with CRISPR-Local

Find 2 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATTGGATGTTTATCAATT+TGG 0.155871 4_2:-72006498 None:intergenic
TCACATTGACAATTATTTAA+AGG 0.188036 4_2:+72007345 Msa0620460:three_prime_UTR
ATTCTGTTTGATACTGTTAT+TGG 0.235327 4_2:+72000530 Msa0620460:CDS
GCTTTCAAAGCAATTGTTCT+TGG 0.239320 4_2:+72002706 Msa0620460:CDS
ATATTTCCCGGCAGCAAATT+TGG 0.268611 4_2:-72006996 None:intergenic
AATTTGGTCCTCGTTGTTAA+AGG 0.273017 4_2:-72006980 None:intergenic
TGTAATTATCTAATGGAAAA+TGG 0.285414 4_2:-72000099 None:intergenic
ATGGCTGTTCTATCTGGTTT+TGG 0.288518 4_2:+72000765 Msa0620460:CDS
ACCGGTGATAAAAGTCAAAT+TGG 0.292591 4_2:-72006405 None:intergenic
ACTGTCATGGCTGTTCTATC+TGG 0.294941 4_2:+72000759 Msa0620460:CDS
ATCAAGTAACAATGATAATA+AGG 0.302602 4_2:-72000564 None:intergenic
GACACTAACCTGAGATAATA+AGG 0.315088 4_2:-72003980 None:intergenic
TAGAAACTATACATGTATAT+AGG 0.338300 4_2:-72006655 None:intergenic
TTAAGACTGTAATTATCTAA+TGG 0.341405 4_2:-72000106 None:intergenic
TGCTGCCGGGAAATATTTGC+AGG 0.348392 4_2:+72007003 Msa0620460:three_prime_UTR
GATTATCATTACAGAGGTAT+TGG 0.353524 4_2:+72006372 Msa0620460:CDS
GCACATACTGCCAAGTCTAT+TGG 0.358239 4_2:+72006872 Msa0620460:three_prime_UTR
ATCTAGCGTTGTTTCGAAAT+CGG 0.359999 4_2:+72000152 Msa0620460:five_prime_UTR
CCTCAATTGGTCAGTAGAAT+TGG 0.365468 4_2:+72000723 Msa0620460:CDS
AACACACTTATACCTGTATT+CGG 0.368811 4_2:-72005696 None:intergenic
GTTAGGATGGGTTGGGGAAG+AGG 0.370065 4_2:+72000197 Msa0620460:exon
CACTTGGTTGGGCAGGTGTT+TGG 0.371948 4_2:+72000258 Msa0620460:CDS
TTTCTTTACTATGCCTCAAT+TGG 0.379528 4_2:+72000710 Msa0620460:CDS
GAAAATTATTCTCGCTCAAA+TGG 0.382660 4_2:+72000908 Msa0620460:CDS
GAAACTAACCTTGCTCCTTC+TGG 0.382664 4_2:-72001274 None:intergenic
AGAAACTATACATGTATATA+GGG 0.386494 4_2:-72006654 None:intergenic
AAGTTTGTGTTCACTTGGTT+GGG 0.388000 4_2:+72000247 Msa0620460:CDS
TTGGAAGGTTCAGTTGTGTT+AGG 0.389903 4_2:+72000224 Msa0620460:CDS
GAAGTTTGTGTTCACTTGGT+TGG 0.392795 4_2:+72000246 Msa0620460:CDS
ATTATCATTACAGAGGTATT+GGG 0.393721 4_2:+72006373 Msa0620460:CDS
TCTTGGTGTTAGGATGGGTT+GGG 0.396451 4_2:+72000190 Msa0620460:exon
TTCTCATTGATGATCTCTTC+CGG 0.407244 4_2:-72006817 None:intergenic
CTGCTGCATATTCTCGAACT+TGG 0.408126 4_2:+72002984 Msa0620460:CDS
GCATAATATCAATTTACAAA+AGG 0.410480 4_2:-72007100 None:intergenic
CGGTTGATTTCAGTTTGGTT+CGG 0.422332 4_2:-72006933 None:intergenic
ATTTGGTCCTCGTTGTTAAA+GGG 0.426086 4_2:-72006979 None:intergenic
CTCCTTCTGGTCCTCTTGCA+CGG 0.431487 4_2:-72001261 None:intergenic
GTCAGTAGAATTGGTGTCAT+TGG 0.434768 4_2:+72000732 Msa0620460:CDS
GAGTGATCGATCTTGGTGTT+AGG 0.435022 4_2:+72000180 Msa0620460:five_prime_UTR
CATAATATCAATTTACAAAA+GGG 0.436626 4_2:-72007099 None:intergenic
GGGTTGGGGAAGAGGAATCT+TGG 0.438549 4_2:+72000205 Msa0620460:CDS
GTGAACTTTAAAAGTAGGTT+CGG 0.441147 4_2:-72006953 None:intergenic
ATGGTCCTGCAAATATTTCC+CGG 0.445847 4_2:-72007008 None:intergenic
TATATTTCCTTGCTATTCAT+CGG 0.456786 4_2:+72004899 Msa0620460:CDS
GGAAACTGAGATCAAGGCCT+TGG 0.461760 4_2:+72000839 Msa0620460:CDS
AAATGCAGCCTTATTATCTC+AGG 0.465152 4_2:+72003972 Msa0620460:CDS
ATTCTTAACAAATTTAATGA+AGG 0.466176 4_2:+72004949 Msa0620460:CDS
AAAGCTTAGCAACCGAATAC+AGG 0.469068 4_2:+72005684 Msa0620460:CDS
AATACGTTTGATAAAAGATC+TGG 0.470086 4_2:-72001219 None:intergenic
AGGCATGGAAGCAGAGGTAC+TGG 0.470967 4_2:+72002673 Msa0620460:CDS
ATCTTGGTGTTAGGATGGGT+TGG 0.472515 4_2:+72000189 Msa0620460:exon
GGAATCAGAGTGATCGATCT+TGG 0.479602 4_2:+72000173 Msa0620460:five_prime_UTR
GGACATATGCAGAATCTACT+AGG 0.481782 4_2:+72003010 Msa0620460:CDS
GGTTTGTGAACTTTAAAAGT+AGG 0.482311 4_2:-72006958 None:intergenic
GACATACTCTTTAGAGAGGA+TGG 0.483171 4_2:-72000402 None:intergenic
TTGTGTGTATAAAATGATCA+AGG 0.483771 4_2:+72003051 Msa0620460:CDS
GATCGATCTTGGTGTTAGGA+TGG 0.484139 4_2:+72000184 Msa0620460:exon
TTGTGTTCACTTGGTTGGGC+AGG 0.487039 4_2:+72000251 Msa0620460:CDS
CTTGCTATTCATCGGAATGT+TGG 0.489185 4_2:+72004907 Msa0620460:CDS
GTGAATACCCATTCTCCAAA+AGG 0.493125 4_2:-72000661 None:intergenic
TTAAATAATTGTCAATGTGA+AGG 0.493347 4_2:-72007342 None:intergenic
AAGAGTGATAAATAACTGTA+TGG 0.498599 4_2:-72000801 None:intergenic
ATAGGGCAAGAGTTGTGAAC+TGG 0.500826 4_2:+72000496 Msa0620460:intron
AAGTTACACTCACAATCAAT+TGG 0.502259 4_2:-72006514 None:intergenic
CTGCATAAGTTGTCTTTCCA+AGG 0.506266 4_2:-72000856 None:intergenic
GATTGAGGAAACTGAGATCA+AGG 0.512109 4_2:+72000833 Msa0620460:CDS
AGATACAATGCAATATAATA+CGG 0.512261 4_2:-72007277 None:intergenic
GCTGTTTCAAGAGTTGGAAG+TGG 0.519122 4_2:+72005584 Msa0620460:CDS
ACTCTTCATCAGAGAGATTG+AGG 0.519209 4_2:+72000818 Msa0620460:CDS
AATGCGCAGATAGTAAAAGT+AGG 0.522155 4_2:-72006465 None:intergenic
AGGTTCGGTTGATTTCAGTT+TGG 0.526179 4_2:-72006938 None:intergenic
TGTCATTGGTGTTACTGTCA+TGG 0.534360 4_2:+72000746 Msa0620460:CDS
CCAATTCTACTGACCAATTG+AGG 0.538924 4_2:-72000723 None:intergenic
GTGGTTTGATGCAATATTTG+TGG 0.542218 4_2:+72006426 Msa0620460:CDS
TTAGGAAGTTTGTGTTCACT+TGG 0.543040 4_2:+72000242 Msa0620460:CDS
CTATGAGCTTCGACAAGCAA+AGG 0.544516 4_2:+72002733 Msa0620460:CDS
TACTTGATGCTTAAAAGCAG+TGG 0.544743 4_2:+72000579 Msa0620460:CDS
CTATTGGAATATCCATGTCT+AGG 0.545109 4_2:+72006888 Msa0620460:three_prime_UTR
AAAATATGTTCCCATTATCT+CGG 0.545480 4_2:-72005636 None:intergenic
CATGGATATTCCAATAGACT+TGG 0.545545 4_2:-72006882 None:intergenic
ACGAGGACCAAATTTGCTGC+CGG 0.548053 4_2:+72006989 Msa0620460:three_prime_UTR
TATTCTCGCTCAAATGGAGA+TGG 0.549765 4_2:+72000914 Msa0620460:CDS
ATTGTATCTTCAGACTTCAC+AGG 0.551705 4_2:+72007291 Msa0620460:three_prime_UTR
CGAGGACCAAATTTGCTGCC+GGG 0.553919 4_2:+72006990 Msa0620460:three_prime_UTR
ATGCGCAGATAGTAAAAGTA+GGG 0.557128 4_2:-72006464 None:intergenic
CTTGGTGTTAGGATGGGTTG+GGG 0.562766 4_2:+72000191 Msa0620460:exon
AGAACTGAAAGAGCTGCACT+TGG 0.565424 4_2:+72000606 Msa0620460:CDS
TGCAATATAATACGGATACA+TGG 0.565878 4_2:-72007269 None:intergenic
ATACTTATCATCCTTGTCAC+GGG 0.571650 4_2:-72003922 None:intergenic
ATCGATCTTGGTGTTAGGAT+GGG 0.572234 4_2:+72000185 Msa0620460:exon
CTTATGCAGTCAATTGAGAC+TGG 0.572440 4_2:+72000870 Msa0620460:CDS
GGGTCTAAGTTGTGTTGTGT+TGG 0.574357 4_2:+72007199 Msa0620460:three_prime_UTR
GCATATTCTCGAACTTGGAA+AGG 0.574715 4_2:+72002989 Msa0620460:CDS
ATGTGAAGATATCAAAGGCA+TGG 0.581837 4_2:+72002658 Msa0620460:intron
GTTGAATGTGAAGATATCAA+AGG 0.586462 4_2:+72002653 Msa0620460:intron
TATACTTATCATCCTTGTCA+CGG 0.589557 4_2:-72003923 None:intergenic
CAGATAGTAAAAGTAGGGAA+AGG 0.591096 4_2:-72006459 None:intergenic
CAAGAGGACCAGAAGGAGCA+AGG 0.594045 4_2:+72001266 Msa0620460:CDS
AGTTGTTCGATCCGTGCAAG+AGG 0.594350 4_2:+72001250 Msa0620460:CDS
TGCTGACTAGAAATTCATAC+CGG 0.595756 4_2:+72006798 Msa0620460:three_prime_UTR
ACATACTCTTTAGAGAGGAT+GGG 0.598774 4_2:-72000401 None:intergenic
TTAGACCCGTAAATAAAACT+AGG 0.601286 4_2:-72007184 None:intergenic
TAAAATGTTTCGTCAAACAA+TGG 0.606340 4_2:-72007027 None:intergenic
CAAATATTGCATCAAACCAC+CGG 0.610784 4_2:-72006423 None:intergenic
TATCAAAGGCATGGAAGCAG+AGG 0.616520 4_2:+72002667 Msa0620460:CDS
GGAAGAGATCATCAATGAGA+AGG 0.619170 4_2:+72006819 Msa0620460:three_prime_UTR
ATCCGTGCAAGAGGACCAGA+AGG 0.621117 4_2:+72001259 Msa0620460:CDS
GTTCAGTTGATCCCGTGACA+AGG 0.624543 4_2:+72003911 Msa0620460:CDS
CAACATTCCGATGAATAGCA+AGG 0.630088 4_2:-72004906 None:intergenic
GAACAAGCAAGGATCTGAAG+AGG 0.635624 4_2:+72000938 Msa0620460:CDS
ATGGAGATGGAGAACAAGCA+AGG 0.635747 4_2:+72000927 Msa0620460:CDS
AAATGACATACTCTTTAGAG+AGG 0.641736 4_2:-72000406 None:intergenic
ATCATTACAGAGGTATTGGG+CGG 0.644393 4_2:+72006376 Msa0620460:CDS
ATAGTTTCTACTGCAACGAA+AGG 0.645020 4_2:+72006668 Msa0620460:three_prime_UTR
TGGGGAAGAGGAATCTTGGA+AGG 0.674682 4_2:+72000209 Msa0620460:CDS
TGACAGGATTATCATTACAG+AGG 0.676858 4_2:+72006366 Msa0620460:intron
TTGGTTGTGATATCAGTGCG+TGG 0.694691 4_2:+72004926 Msa0620460:CDS
TCACAAACCCTTTAACAACG+AGG 0.764309 4_2:+72006972 Msa0620460:three_prime_UTR

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGTAATTATCTAATGGAAAA+TGG - chr4_2:72000102-72000121 None:intergenic 20.0%
!! TTAAGACTGTAATTATCTAA+TGG - chr4_2:72000109-72000128 None:intergenic 20.0%
Chromosome Type Strat End Strand Name
chr4_2 gene 72000034 72007385 72000034 ID=Msa0620460;Name=Msa0620460
chr4_2 mRNA 72000034 72007385 72000034 ID=Msa0620460-mRNA-1;Parent=Msa0620460;Name=Msa0620460-mRNA-1;_AED=0.16;_eAED=0.16;_QI=169|0.81|0.83|1|0.63|0.58|12|639|448
chr4_2 exon 72000034 72000417 72000034 ID=Msa0620460-mRNA-1:exon:21420;Parent=Msa0620460-mRNA-1
chr4_2 exon 72000500 72000675 72000500 ID=Msa0620460-mRNA-1:exon:21421;Parent=Msa0620460-mRNA-1
chr4_2 exon 72000709 72000959 72000709 ID=Msa0620460-mRNA-1:exon:21422;Parent=Msa0620460-mRNA-1
chr4_2 exon 72001209 72001287 72001209 ID=Msa0620460-mRNA-1:exon:21423;Parent=Msa0620460-mRNA-1
chr4_2 exon 72002666 72002754 72002666 ID=Msa0620460-mRNA-1:exon:21424;Parent=Msa0620460-mRNA-1
chr4_2 exon 72002980 72003072 72002980 ID=Msa0620460-mRNA-1:exon:21425;Parent=Msa0620460-mRNA-1
chr4_2 exon 72003907 72003993 72003907 ID=Msa0620460-mRNA-1:exon:21426;Parent=Msa0620460-mRNA-1
chr4_2 exon 72004899 72004970 72004899 ID=Msa0620460-mRNA-1:exon:21427;Parent=Msa0620460-mRNA-1
chr4_2 exon 72005575 72005705 72005575 ID=Msa0620460-mRNA-1:exon:21428;Parent=Msa0620460-mRNA-1
chr4_2 exon 72006372 72006523 72006372 ID=Msa0620460-mRNA-1:exon:21429;Parent=Msa0620460-mRNA-1
chr4_2 exon 72006642 72006689 72006642 ID=Msa0620460-mRNA-1:exon:21430;Parent=Msa0620460-mRNA-1
chr4_2 exon 72006793 72007385 72006793 ID=Msa0620460-mRNA-1:exon:21431;Parent=Msa0620460-mRNA-1
chr4_2 five_prime_UTR 72000034 72000202 72000034 ID=Msa0620460-mRNA-1:five_prime_utr;Parent=Msa0620460-mRNA-1
chr4_2 CDS 72000203 72000417 72000203 ID=Msa0620460-mRNA-1:cds;Parent=Msa0620460-mRNA-1
chr4_2 CDS 72000500 72000675 72000500 ID=Msa0620460-mRNA-1:cds;Parent=Msa0620460-mRNA-1
chr4_2 CDS 72000709 72000959 72000709 ID=Msa0620460-mRNA-1:cds;Parent=Msa0620460-mRNA-1
chr4_2 CDS 72001209 72001287 72001209 ID=Msa0620460-mRNA-1:cds;Parent=Msa0620460-mRNA-1
chr4_2 CDS 72002666 72002754 72002666 ID=Msa0620460-mRNA-1:cds;Parent=Msa0620460-mRNA-1
chr4_2 CDS 72002980 72003072 72002980 ID=Msa0620460-mRNA-1:cds;Parent=Msa0620460-mRNA-1
chr4_2 CDS 72003907 72003993 72003907 ID=Msa0620460-mRNA-1:cds;Parent=Msa0620460-mRNA-1
chr4_2 CDS 72004899 72004970 72004899 ID=Msa0620460-mRNA-1:cds;Parent=Msa0620460-mRNA-1
chr4_2 CDS 72005575 72005705 72005575 ID=Msa0620460-mRNA-1:cds;Parent=Msa0620460-mRNA-1
chr4_2 CDS 72006372 72006523 72006372 ID=Msa0620460-mRNA-1:cds;Parent=Msa0620460-mRNA-1
chr4_2 CDS 72006642 72006643 72006642 ID=Msa0620460-mRNA-1:cds;Parent=Msa0620460-mRNA-1
chr4_2 three_prime_UTR 72006644 72006689 72006644 ID=Msa0620460-mRNA-1:three_prime_utr;Parent=Msa0620460-mRNA-1
chr4_2 three_prime_UTR 72006793 72007385 72006793 ID=Msa0620460-mRNA-1:three_prime_utr;Parent=Msa0620460-mRNA-1
Gene Sequence

>Msa0620460

ATGGGTTGGGGAAGAGGAATCTTGGAAGGTTCAGTTGTGTTAGGAAGTTTGTGTTCACTTGGTTGGGCAGGTGTTTGGTTTTTGAATCGTCGTCTCTACAAAGAATATGAAGAGAAACGCGTTCTTGTTCAAATCATTTTCAGTATTGTCTTTGCTTTCTCTTGCAATCTTCTTCAGCTTGTTATCTTCGAAATCATTCCCATCCTCTCTAAAGAGGCAAGAGTTGTGAACTGGAAGATTGATCTATTCTGTTTGATACTGTTATTGGTGTTTCTTTTGCCTTATTATCATTGTTACTTGATGCTTAAAAGCAGTGGTTTGAGAACTGAAAGAGCTGCACTTGGTGCTGTTTTGTTCTTGTTTGCTTTTCTTTATGCCTTTTGGAGAATGGGTTTCTTTACTATGCCTCAATTGGTCAGTAGAATTGGTGTCATTGGTGTTACTGTCATGGCTGTTCTATCTGGTTTTGGTGCTGTTAACTTGCCATACAGTTATTTATCACTCTTCATCAGAGAGATTGAGGAAACTGAGATCAAGGCCTTGGAAAGACAACTTATGCAGTCAATTGAGACTGGTATTTCAAACAAAAAGAAAATTATTCTCGCTCAAATGGAGATGGAGAACAAGCAAGGATCTGAAGAGAGGTTAACTGCCAGATCTTTTATCAAACGTATTGTTGGTACAGTTGTTCGATCCGTGCAAGAGGACCAGAAGGAGCAAGATATCAAAGGCATGGAAGCAGAGGTACTGGCTTTAGAAGAGCTTTCAAAGCAATTGTTCTTGGAGATCTATGAGCTTCGACAAGCAAAGGAAGCTGCTGCATATTCTCGAACTTGGAAAGGACATATGCAGAATCTACTAGGTTATGCTTGTTCCGTTTATTGTGTGTATAAAATGATCAAGGCTGGTTCAGTTGATCCCGTGACAAGGATGATAAGTATATTCCTACAGTTTTTTGATATTGGAATAAATGCAGCCTTATTATCTCAGTATATTTCCTTGCTATTCATCGGAATGTTGGTTGTGATATCAGTGCGTGGATTCTTAACAAATTTAATGAAGTTCTTTTTTGCTGTTTCAAGAGTTGGAAGTGGATCATCCAGCAACGTTGTTCTGTTTTTGTCCGAGATAATGGGAACATATTTTGTATCTTCTATTCTTTTAATCAGGAAAAGCTTAGCAACCGAATACAGGATTATCATTACAGAGGTATTGGGCGGTGATATCCAATTTGACTTTTATCACCGGTGGTTTGATGCAATATTTGTGGCTAGTGCATTCCTTTCCCTACTTTTACTATCTGCGCATTATACATCTCGCCAAATTGATAAACATCCAATTGATTGA

Protein sequence

>Msa0620460

MGWGRGILEGSVVLGSLCSLGWAGVWFLNRRLYKEYEEKRVLVQIIFSIVFAFSCNLLQLVIFEIIPILSKEARVVNWKIDLFCLILLLVFLLPYYHCYLMLKSSGLRTERAALGAVLFLFAFLYAFWRMGFFTMPQLVSRIGVIGVTVMAVLSGFGAVNLPYSYLSLFIREIEETEIKALERQLMQSIETGISNKKKIILAQMEMENKQGSEERLTARSFIKRIVGTVVRSVQEDQKEQDIKGMEAEVLALEELSKQLFLEIYELRQAKEAAAYSRTWKGHMQNLLGYACSVYCVYKMIKAGSVDPVTRMISIFLQFFDIGINAALLSQYISLLFIGMLVVISVRGFLTNLMKFFFAVSRVGSGSSSNVVLFLSEIMGTYFVSSILLIRKSLATEYRIIITEVLGGDIQFDFYHRWFDAIFVASAFLSLLLLSAHYTSRQIDKHPID*