AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG042613

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042613 MtrunA17_Chr8g0354151 97.705 305 7 0 1 305 1 305 0.0 615
MsaG042613 MtrunA17_Chr3g0081161 69.831 295 73 6 1 294 1 280 5.07e-128 366
MsaG042613 MtrunA17_Chr5g0441241 43.750 288 135 9 18 293 1 273 6.56e-51 169
MsaG042613 MtrunA17_Chr2g0288481 38.202 89 52 1 1 86 75 163 6.97e-12 64.3
MsaG042613 MtrunA17_Chr3g0132191 37.975 79 49 0 8 86 55 133 1.04e-11 63.5
MsaG042613 MtrunA17_Chr1g0191681 37.179 78 49 0 9 86 102 179 1.42e-11 63.5
MsaG042613 MtrunA17_Chr7g0272991 37.179 78 49 0 9 86 102 179 1.66e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042613 AT3G12480.1 47.588 311 117 9 1 294 1 282 1.77e-69 218
MsaG042613 AT5G19490.1 62.857 140 39 4 1 137 1 130 8.28e-51 169
MsaG042613 AT1G54830.2 38.462 78 48 0 9 86 71 148 6.05e-12 64.3
MsaG042613 AT1G54830.3 38.462 78 48 0 9 86 71 148 6.05e-12 64.3
MsaG042613 AT1G54830.1 38.462 78 48 0 9 86 71 148 6.05e-12 64.3
MsaG042613 AT5G63470.2 37.975 79 49 0 8 86 78 156 1.37e-11 63.9
MsaG042613 AT5G63470.1 37.975 79 49 0 8 86 78 156 1.37e-11 63.9
MsaG042613 AT1G08970.3 38.462 78 48 0 9 86 81 158 1.48e-11 63.5
MsaG042613 AT1G08970.4 38.462 78 48 0 9 86 81 158 1.48e-11 63.5
MsaG042613 AT1G08970.2 38.462 78 48 0 9 86 81 158 1.48e-11 63.5
MsaG042613 AT1G08970.1 38.462 78 48 0 9 86 81 158 1.48e-11 63.5
MsaG042613 AT3G48590.1 37.975 79 49 0 8 86 65 143 1.52e-11 63.5
MsaG042613 AT1G56170.1 38.462 78 48 0 9 86 77 154 5.29e-11 61.6
MsaG042613 AT1G56170.2 38.462 78 48 0 9 86 77 154 5.29e-11 61.6

Find 85 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTTGTATCTGTAGTATTT+TGG 0.175216 8:+24803258 None:intergenic
TGGCATTCAGATCAATATTA+AGG 0.272737 8:+24803153 None:intergenic
AGAACAGCAACATTATTCTT+TGG 0.296672 8:+24803200 None:intergenic
CAGTCATCATGAAGAAATTC+CGG 0.308338 8:-24803009 MsaT042613.1:CDS
TCACAAATGCAATGAATTCA+TGG 0.326874 8:+24804783 None:intergenic
GGCTTCAGGATTAGCGGCTT+CGG 0.328666 8:+24803070 None:intergenic
GAACGAAAATGATGACAAAA+AGG 0.328849 8:-24803126 MsaT042613.1:CDS
GGTATCGAGCTTCTTCTTCA+TGG 0.346522 8:+24806116 None:intergenic
GCTTCAGGATTAGCGGCTTC+GGG 0.358509 8:+24803071 None:intergenic
CCTTCTATTCCAGCTTGAGT+TGG 0.372989 8:-24803420 MsaT042613.1:intron
CTTCTATTCCAGCTTGAGTT+GGG 0.411737 8:-24803419 MsaT042613.1:intron
AGGGGAAGAGGCCGAGGTAG+AGG 0.414973 8:-24803377 MsaT042613.1:CDS
AGCAACTCACAAACTAAAAC+AGG 0.424990 8:+24804960 None:intergenic
TCATGATGACTGCTGTCTGT+TGG 0.443464 8:+24803020 None:intergenic
CAGCACCACCAGCATCAGTA+TGG 0.445315 8:+24804059 None:intergenic
AGAGGCCGAGGTAGAGGAAG+AGG 0.445372 8:-24803371 MsaT042613.1:CDS
TCAAAGAGAGGGACATCATC+AGG 0.446129 8:-24803321 MsaT042613.1:CDS
GTTGGAGGAGGTTCAGAGAC+AGG 0.449170 8:+24803038 None:intergenic
CATCCATTCGCGTACCAAGC+TGG 0.451375 8:+24802934 None:intergenic
AATACTCACAGCAGGGAAAC+GGG 0.451379 8:+24806095 None:intergenic
AGTCATCATGAAGAAATTCC+GGG 0.458892 8:-24803008 MsaT042613.1:CDS
AGTGAGTCAGAGTTATCAAC+AGG 0.460372 8:+24803176 None:intergenic
CGAGGTAGAGGAAGAGGAAG+AGG 0.463525 8:-24803365 MsaT042613.1:CDS
ACAAATGTGGCTATACTTGA+TGG 0.465433 8:-24803242 MsaT042613.1:CDS
ATTCATTACAGCTAAAGCTC+TGG 0.468617 8:-24804869 MsaT042613.1:intron
CCATGACCATGGCTGTAGTC+AGG 0.470467 8:+24804082 None:intergenic
ATCCATTCGCGTACCAAGCT+GGG 0.471142 8:+24802935 None:intergenic
CGGCCTCTTCCCCTACCAGT+AGG 0.471290 8:+24803386 None:intergenic
AGAGGAAGAGGACGAGGTCG+AGG 0.473350 8:-24803353 MsaT042613.1:CDS
AAATACTCACAGCAGGGAAA+CGG 0.474814 8:+24806094 None:intergenic
TGATGACTGCTGTCTGTTGG+AGG 0.488755 8:+24803023 None:intergenic
ATGAAATAACTCTTCAAAGA+GGG 0.491656 8:-24804813 MsaT042613.1:CDS
GGCAAGCTGCATCGAATCAA+TGG 0.495075 8:+24802956 None:intergenic
TTGGGCCACACTAGCCCTAC+TGG 0.513050 8:-24803401 MsaT042613.1:CDS
CCTTTCTGAGGTGGACAAGA+TGG 0.513246 8:-24802979 MsaT042613.1:CDS
AGCCCTACTGGTAGGGGAAG+AGG 0.516467 8:-24803389 MsaT042613.1:CDS
CCACACTAGCCCTACTGGTA+GGG 0.519565 8:-24803396 MsaT042613.1:CDS
TCCGGGCTGGTCCCTTTCTG+AGG 0.520532 8:-24802991 MsaT042613.1:CDS
GATGAAGATTATGACGAGGA+AGG 0.523023 8:-24802906 MsaT042613.1:CDS
TAATGTATTTGACTTTCTGA+AGG 0.523769 8:-24804122 MsaT042613.1:CDS
GGGCTGGTCCCTTTCTGAGG+TGG 0.523889 8:-24802988 MsaT042613.1:CDS
TGGCTAACTTGCTGAACAGA+AGG 0.535919 8:+24803278 None:intergenic
CCCTACCAGTAGGGCTAGTG+TGG 0.536396 8:+24803396 None:intergenic
CCATCTTGTCCACCTCAGAA+AGG 0.536812 8:+24802979 None:intergenic
TCGATGCAGCTTGCCCAGCT+TGG 0.538063 8:-24802948 MsaT042613.1:CDS
ACTGGTAGGGGAAGAGGCCG+AGG 0.543075 8:-24803383 MsaT042613.1:CDS
ATGCAAGCTGATGAAGATGT+TGG 0.543982 8:-24805002 MsaT042613.1:CDS
CATCTTGTCCACCTCAGAAA+GGG 0.544706 8:+24802980 None:intergenic
CAGTGATGAAGAAGCTAAGA+GGG 0.545305 8:-24803898 MsaT042613.1:CDS
TTGGAGGAGGTTCAGAGACA+GGG 0.547073 8:+24803039 None:intergenic
TGCCCAGCTTGGTACGCGAA+TGG 0.547995 8:-24802937 MsaT042613.1:CDS
TGACTGCTGTCTGTTGGAGG+AGG 0.548420 8:+24803026 None:intergenic
GGTCATGGCCATACTGATGC+TGG 0.551049 8:-24804067 MsaT042613.1:CDS
CTCTTCCTCTTCCTCTACCT+CGG 0.552926 8:+24803366 None:intergenic
ATTAGCGGCTTCAGGATTAG+CGG 0.555789 8:+24803064 None:intergenic
CATGTTTGCAGGAAAGCTGC+AGG 0.556670 8:-24803936 MsaT042613.1:intron
ACAGTGATGAAGAAGCTAAG+AGG 0.558884 8:-24803899 MsaT042613.1:CDS
AGGAAAGCTGCAGGTGATGA+TGG 0.561033 8:-24803927 MsaT042613.1:CDS
ATGAAGATTATGACGAGGAA+GGG 0.569841 8:-24802905 MsaT042613.1:CDS
CCTGACTACAGCCATGGTCA+TGG 0.579794 8:-24804082 MsaT042613.1:CDS
GGCCTCTTCCCCTACCAGTA+GGG 0.586705 8:+24803387 None:intergenic
AGAGGAAGAGGAAGAGGACG+AGG 0.587613 8:-24803359 MsaT042613.1:CDS
CACACTAGCCCTACTGGTAG+GGG 0.591865 8:-24803395 MsaT042613.1:CDS
ATCATGAAGAAATTCCGGGC+TGG 0.593923 8:-24803004 MsaT042613.1:CDS
ACCTCAGAAAGGGACCAGCC+CGG 0.596293 8:+24802990 None:intergenic
TATGAAATAACTCTTCAAAG+AGG 0.600363 8:-24804814 MsaT042613.1:CDS
AGAAGCTAAGAGGGGCAAGA+TGG 0.603158 8:-24803889 MsaT042613.1:intron
TGAAATAACTCTTCAAAGAG+GGG 0.609065 8:-24804812 MsaT042613.1:CDS
GGACGAGCTATTCAAAGAGA+GGG 0.624122 8:-24803332 MsaT042613.1:CDS
AGAAGGACAAGGCTCAGACT+CGG 0.625318 8:+24803295 None:intergenic
AGGACGAGCTATTCAAAGAG+AGG 0.625357 8:-24803333 MsaT042613.1:CDS
TCTGAAGGATGTAGTCAGCA+AGG 0.625572 8:-24804107 MsaT042613.1:CDS
AAGGTTCCTGACTACAGCCA+TGG 0.627628 8:-24804088 MsaT042613.1:CDS
GAAGAGTTATTTCATAAGTG+CGG 0.628887 8:+24804821 None:intergenic
CATCAGTATGGCCATGACCA+TGG 0.639178 8:+24804071 None:intergenic
GCCACACTAGCCCTACTGGT+AGG 0.654203 8:-24803397 MsaT042613.1:CDS
TTTCATAAGTGCGGTCACAA+AGG 0.658401 8:+24804830 None:intergenic
CATGGCCATACTGATGCTGG+TGG 0.661901 8:-24804064 MsaT042613.1:CDS
TGGAGGAGGTTCAGAGACAG+GGG 0.663154 8:+24803040 None:intergenic
AGATGTTGGAAAGATAGCAT+TGG 0.667342 8:-24804988 MsaT042613.1:CDS
AAATACTACAGATACAAATG+TGG 0.667589 8:-24803255 MsaT042613.1:CDS
AGATGATGAAGATTATGACG+AGG 0.685761 8:-24802910 MsaT042613.1:CDS
ACTTGCTGAACAGAAGGACA+AGG 0.703007 8:+24803284 None:intergenic
GGAGGAGGTTCAGAGACAGG+GGG 0.712756 8:+24803041 None:intergenic
AGTGATGAAGAAGCTAAGAG+GGG 0.724764 8:-24803897 MsaT042613.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 24802902 24806136 24802902 ID=MsaG042613
Chr8 mRNA 24802902 24806136 24802902 ID=MsaT042613.1;Parent=MsaG042613
Chr8 exon 24802902 24803429 24802902 ID=MsaT042613.1.exon6;Parent=MsaT042613.1
Chr8 CDS 24802902 24803429 24802902 ID=cds.MsaT042613.1;Parent=MsaT042613.1
Chr8 exon 24803890 24803947 24803890 ID=MsaT042613.1.exon5;Parent=MsaT042613.1
Chr8 CDS 24803890 24803947 24803890 ID=cds.MsaT042613.1;Parent=MsaT042613.1
Chr8 exon 24804034 24804165 24804034 ID=MsaT042613.1.exon4;Parent=MsaT042613.1
Chr8 CDS 24804034 24804165 24804034 ID=cds.MsaT042613.1;Parent=MsaT042613.1
Chr8 exon 24804787 24804880 24804787 ID=MsaT042613.1.exon3;Parent=MsaT042613.1
Chr8 CDS 24804787 24804880 24804787 ID=cds.MsaT042613.1;Parent=MsaT042613.1
Chr8 exon 24804970 24805042 24804970 ID=MsaT042613.1.exon2;Parent=MsaT042613.1
Chr8 CDS 24804970 24805042 24804970 ID=cds.MsaT042613.1;Parent=MsaT042613.1
Chr8 exon 24806104 24806136 24806104 ID=MsaT042613.1.exon1;Parent=MsaT042613.1
Chr8 CDS 24806104 24806136 24806104 ID=cds.MsaT042613.1;Parent=MsaT042613.1
Gene Sequence

>MsaT042613.1

ATGAAGAAGAAGCTCGATACCCGTTTCCCTGCTGCTCGGATAAAGAAAATAATGCAAGCTGATGAAGATGTTGGAAAGATAGCATTGGCTGTGCCTGTTTTAGTTTCTAAAGCTCTGGAGCTATTTTTGCAAGACCTTTGTGACCGCACTTATGAAATAACTCTTCAAAGAGGGGCGAAAACCATGAATTCATTGCATTTAAAACATTGTGTACAAAGCTATAATGTATTTGACTTTCTGAAGGATGTAGTCAGCAAGGTTCCTGACTACAGCCATGGTCATGGCCATACTGATGCTGGTGGTGCTGATGATCAGACCATTCCAAAAAGAAGGAAAGCTGCAGGTGATGATGGTAATGACAGTGATGAAGAAGCTAAGAGGGGCAAGATGCTTGAGTTGGGCCACACTAGCCCTACTGGTAGGGGAAGAGGCCGAGGTAGAGGAAGAGGAAGAGGACGAGGTCGAGGACGAGCTATTCAAAGAGAGGGACATCATCAGGAGACCGAGTCTGAGCCTTGTCCTTCTGTTCAGCAAGTTAGCCAAAATACTACAGATACAAATGTGGCTATACTTGATGGCACAGAGTCAAACGAGTTACCAAAGAATAATGTTGCTGTTCTTCCTGTTGATAACTCTGACTCACTCCTTAATATTGATCTGAATGCCAATATGAACGAAAATGATGACAAAAAGGCTAGCACAGTTTCTAATCTCACAGACACTAATCCCGAAGCCGCTAATCCTGAAGCCGCTAATCCCCCTGTCTCTGAACCTCCTCCAACAGACAGCAGTCATCATGAAGAAATTCCGGGCTGGTCCCTTTCTGAGGTGGACAAGATGGCCATTGATTCGATGCAGCTTGCCCAGCTTGGTACGCGAATGGATGAAGATGATGAAGATTATGACGAGGAAGGGTAA
Protein sequence

>MsaT042613.1

MKKKLDTRFPAARIKKIMQADEDVGKIALAVPVLVSKALELFLQDLCDRTYEITLQRGAKTMNSLHLKHCVQSYNVFDFLKDVVSKVPDYSHGHGHTDAGGADDQTIPKRRKAAGDDGNDSDEEAKRGKMLELGHTSPTGRGRGRGRGRGRGRGRGRAIQREGHHQETESEPCPSVQQVSQNTTDTNVAILDGTESNELPKNNVAVLPVDNSDSLLNIDLNANMNENDDKKASTVSNLTDTNPEAANPEAANPPVSEPPPTDSSHHEEIPGWSLSEVDKMAIDSMQLAQLGTRMDEDDEDYDEEG*