AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016671.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016671.01.T01 MTR_3g092980 90.173 173 0 1 1 173 65 220 5.44e-108 307
MsG0380016671.01.T01 MTR_3g092980 90.116 172 0 1 2 173 64 218 3.61e-107 305
MsG0380016671.01.T01 MTR_3g092970 78.161 174 20 2 1 173 71 227 1.64e-89 261
MsG0380016671.01.T01 MTR_7g088680 62.275 167 41 3 7 173 59 203 1.45e-64 197
MsG0380016671.01.T01 MTR_3g093750 59.286 140 24 3 36 173 419 527 2.30e-38 137
MsG0380016671.01.T01 MTR_3g093720 90.698 43 4 0 131 173 215 257 1.01e-18 81.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016671.01.T01 AT3G49470 69.364 173 35 2 2 173 62 217 4.09e-71 214
MsG0380016671.01.T01 AT4G10480 66.279 172 40 2 2 172 57 211 8.33e-67 203
MsG0380016671.01.T01 AT4G10480 66.471 170 39 2 4 172 58 210 2.48e-66 202
MsG0380016671.01.T01 AT3G49470 68.902 164 33 2 2 164 62 208 9.16e-66 201
MsG0380016671.01.T01 AT1G33040 63.314 169 44 2 5 172 57 208 7.60e-64 195
MsG0380016671.01.T01 AT3G12390 62.874 167 42 2 7 173 57 203 5.35e-59 183
MsG0380016671.01.T01 AT5G13850 63.314 169 43 2 7 173 53 204 1.15e-57 179

Find 54 sgRNAs with CRISPR-Local

Find 68 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAGAGACCTACGTTATATT+TGG 0.142242 3:+86430522 MsG0380016671.01.T01:CDS
ATTTGGCTACATTCTCTTAA+AGG 0.170141 3:-86430868 MsG0380016670.01.T01:three_prime_UTR
ATAACGTAGGTCTCTGAATT+TGG 0.208217 3:-86430516 None:intergenic
CAGAGACCTACGTTATATTT+GGG 0.269261 3:+86430523 MsG0380016671.01.T01:CDS
TCAACCTCCTCTTCCTCTTC+AGG 0.290554 3:-86430669 None:intergenic
GCCATTATAGATCCCATATC+TGG 0.303001 3:-86430609 None:intergenic
CACAAGCTGCTCAACAGTTC+AGG 0.364720 3:+86430583 MsG0380016671.01.T01:CDS
ACAGTTCAGGATGCCAGATA+TGG 0.369124 3:+86430596 MsG0380016671.01.T01:CDS
CAGAGCATAACAAAATTATA+AGG 0.382410 3:-86430925 MsG0380016670.01.T01:three_prime_UTR
CGTAGAGGAATTTAAACTAA+TGG 0.382921 3:+86430223 MsG0380016671.01.T01:CDS
GCCAGATATGGGATCTATAA+TGG 0.384072 3:+86430608 MsG0380016671.01.T01:CDS
AACCCATTGATGGTGTTACT+AGG 0.392278 3:+86430147 MsG0380016671.01.T01:CDS
TCATAGTCATAGATATGATT+TGG 0.395599 3:-86430885 MsG0380016670.01.T01:three_prime_UTR
TACCCTAGTAACACCATCAA+TGG 0.408223 3:-86430150 None:intergenic
TTTGGACTCTTGAAGACATC+AGG 0.416876 3:-86430498 None:intergenic
AGGCTCTCAAAACTCACAAT+GGG 0.426765 3:+86430766 MsG0380016671.01.T01:CDS
TTTGAGAGCCTTGACAGCCT+TGG 0.440959 3:-86430754 None:intergenic
GAAGAGGAGGTTGATGAAAC+TGG 0.453955 3:+86430678 MsG0380016671.01.T01:CDS
TCGAAAAGCAATGTTGAAGC+TGG 0.458999 3:+86430118 MsG0380016671.01.T01:CDS
TGCTCTGAATATTGTAGTAC+GGG 0.471212 3:+86430941 MsG0380016671.01.T01:three_prime_UTR
GAGCTGGTAATGACACAAGC+TGG 0.474762 3:+86430720 MsG0380016671.01.T01:CDS
ACTCACAATGGGGACATTGT+TGG 0.489937 3:+86430777 MsG0380016671.01.T01:CDS
GTGTCTGCAACTGAGAGCTC+AGG 0.502334 3:-86430563 None:intergenic
ATGCTCTGAATATTGTAGTA+CGG 0.510076 3:+86430940 MsG0380016671.01.T01:three_prime_UTR
ACCCTAGTAACACCATCAAT+GGG 0.510907 3:-86430149 None:intergenic
TTAATTAGTTAGTTCCATGA+TGG 0.513698 3:-86430802 None:intergenic
CAGTTCAGGATGCCAGATAT+GGG 0.516112 3:+86430597 MsG0380016671.01.T01:CDS
CTGGGACTAAAACCCATTGA+TGG 0.518737 3:+86430137 MsG0380016671.01.T01:CDS
ACCCATTGATGGTGTTACTA+GGG 0.519807 3:+86430148 MsG0380016671.01.T01:CDS
AGCACAGCCTGAAGAGGAAG+AGG 0.523112 3:+86430662 MsG0380016671.01.T01:CDS
GTCAAAAGCCAAGGCTGTCA+AGG 0.539706 3:+86430746 MsG0380016671.01.T01:CDS
CGAAAAGCAATGTTGAAGCT+GGG 0.542413 3:+86430119 MsG0380016671.01.T01:CDS
TCATTACCAGCTCAATGTCG+TGG 0.549319 3:-86430710 None:intergenic
AAGGCTCTCAAAACTCACAA+TGG 0.552612 3:+86430765 MsG0380016671.01.T01:CDS
GGACATTGTTGGTGCCATCA+TGG 0.557792 3:+86430788 MsG0380016671.01.T01:CDS
GAACAAGGTGCTGCAGCTGA+TGG 0.562947 3:+86430639 MsG0380016671.01.T01:CDS
AGCTGGTAATGACACAAGCT+GGG 0.566806 3:+86430721 MsG0380016671.01.T01:CDS
AGCTGGGGTGTCAAAAGCCA+AGG 0.583545 3:+86430737 MsG0380016671.01.T01:CDS
GGAGGCCCACGACATTGAGC+TGG 0.585026 3:+86430704 MsG0380016671.01.T01:CDS
ACAGCCTGAAGAGGAAGAGG+AGG 0.588386 3:+86430665 MsG0380016671.01.T01:CDS
CATTACCAGCTCAATGTCGT+GGG 0.601311 3:-86430709 None:intergenic
TGATGGAGCACAGCCTGAAG+AGG 0.604282 3:+86430656 MsG0380016671.01.T01:CDS
AGAGACCTACGTTATATTTG+GGG 0.608062 3:+86430524 MsG0380016671.01.T01:CDS
GAGCTCAAATATAACAACAA+AGG 0.612739 3:-86430982 MsG0380016670.01.T01:three_prime_UTR
GACCTACGTTATATTTGGGG+AGG 0.613942 3:+86430527 MsG0380016671.01.T01:CDS
GGAGGTTGATGAAACTGGCG+TGG 0.623179 3:+86430683 MsG0380016671.01.T01:CDS
CGAGATGTAGGTGGTACTGA+AGG 0.629687 3:+86430065 None:intergenic
TTTGGACTTCGAGATGTAGG+TGG 0.646965 3:+86430056 None:intergenic
GGTTGATGAAACTGGCGTGG+AGG 0.659813 3:+86430686 MsG0380016671.01.T01:CDS
TGCCTCCCCAAATATAACGT+AGG 0.662269 3:-86430529 None:intergenic
CTGTTGTCAAATAGACGTAG+AGG 0.691021 3:+86430208 MsG0380016671.01.T01:CDS
GGCTCTCAAAACTCACAATG+GGG 0.691219 3:+86430767 MsG0380016671.01.T01:CDS
ATAATGGCAAAACAAGAACA+AGG 0.704410 3:+86430624 MsG0380016671.01.T01:CDS
GCTGGTAATGACACAAGCTG+GGG 0.796663 3:+86430722 MsG0380016671.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATTTTGCTTTGTTTTTTTT+GGG + Chr3:86430823-86430842 MsG0380016671.01.T01:exon 15.0%
!!! TAATTTTGCTTTGTTTTTTT+TGG + Chr3:86430822-86430841 MsG0380016671.01.T01:exon 15.0%
! ATGAAAAACATAACCTAACA+AGG - Chr3:86430471-86430490 None:intergenic 25.0%
! CAGAGCATAACAAAATTATA+AGG - Chr3:86430928-86430947 MsG0380016670.01.T01:three_prime_UTR 25.0%
! GAATTACTTTATACCTTGTT+AGG + Chr3:86430455-86430474 MsG0380016671.01.T01:intron 25.0%
! TCATAGTCATAGATATGATT+TGG - Chr3:86430888-86430907 MsG0380016670.01.T01:three_prime_UTR 25.0%
! TTAATTAGTTAGTTCCATGA+TGG - Chr3:86430805-86430824 None:intergenic 25.0%
!!! TGTTTTTTTTGGGATGTTTT+TGG + Chr3:86430833-86430852 MsG0380016671.01.T01:three_prime_UTR 25.0%
ATAATGGCAAAACAAGAACA+AGG + Chr3:86430624-86430643 MsG0380016671.01.T01:CDS 30.0%
ATTTGGCTACATTCTCTTAA+AGG - Chr3:86430871-86430890 MsG0380016670.01.T01:three_prime_UTR 30.0%
CGTAGAGGAATTTAAACTAA+TGG + Chr3:86430223-86430242 MsG0380016671.01.T01:CDS 30.0%
GAGCTCAAATATAACAACAA+AGG - Chr3:86430985-86431004 MsG0380016670.01.T01:three_prime_UTR 30.0%
! ATGCTCTGAATATTGTAGTA+CGG + Chr3:86430940-86430959 MsG0380016671.01.T01:three_prime_UTR 30.0%
AGAGACCTACGTTATATTTG+GGG + Chr3:86430524-86430543 MsG0380016671.01.T01:CDS 35.0%
ATAACGTAGGTCTCTGAATT+TGG - Chr3:86430519-86430538 None:intergenic 35.0%
CAGAGACCTACGTTATATTT+GGG + Chr3:86430523-86430542 MsG0380016671.01.T01:CDS 35.0%
TCAGAGACCTACGTTATATT+TGG + Chr3:86430522-86430541 MsG0380016671.01.T01:CDS 35.0%
! AAGTCCAAAGTGCTATCAAA+TGG + Chr3:86430272-86430291 MsG0380016671.01.T01:intron 35.0%
! TGCTCTGAATATTGTAGTAC+GGG + Chr3:86430941-86430960 MsG0380016671.01.T01:three_prime_UTR 35.0%
AAGGCTCTCAAAACTCACAA+TGG + Chr3:86430765-86430784 MsG0380016671.01.T01:CDS 40.0%
ACCCTAGTAACACCATCAAT+GGG - Chr3:86430152-86430171 None:intergenic 40.0%
AGGCTCTCAAAACTCACAAT+GGG + Chr3:86430766-86430785 MsG0380016671.01.T01:CDS 40.0%
ATTTGGGGAGGCAAAAATAG+AGG + Chr3:86430539-86430558 MsG0380016671.01.T01:CDS 40.0%
CGAAAAGCAATGTTGAAGCT+GGG + Chr3:86430119-86430138 MsG0380016671.01.T01:CDS 40.0%
CTGTTGTCAAATAGACGTAG+AGG + Chr3:86430208-86430227 MsG0380016671.01.T01:CDS 40.0%
GCCAGATATGGGATCTATAA+TGG + Chr3:86430608-86430627 MsG0380016671.01.T01:CDS 40.0%
GCCATTATAGATCCCATATC+TGG - Chr3:86430612-86430631 None:intergenic 40.0%
GCTATTGTCATGTAGCACAA+TGG + Chr3:86430306-86430325 MsG0380016671.01.T01:intron 40.0%
TACCCTAGTAACACCATCAA+TGG - Chr3:86430153-86430172 None:intergenic 40.0%
TCGAAAAGCAATGTTGAAGC+TGG + Chr3:86430118-86430137 MsG0380016671.01.T01:CDS 40.0%
TTTGGACTCTTGAAGACATC+AGG - Chr3:86430501-86430520 None:intergenic 40.0%
!! AACCCATTGATGGTGTTACT+AGG + Chr3:86430147-86430166 MsG0380016671.01.T01:CDS 40.0%
!! ACCCATTGATGGTGTTACTA+GGG + Chr3:86430148-86430167 MsG0380016671.01.T01:CDS 40.0%
ACAGTTCAGGATGCCAGATA+TGG + Chr3:86430596-86430615 MsG0380016671.01.T01:CDS 45.0%
ACTCACAATGGGGACATTGT+TGG + Chr3:86430777-86430796 MsG0380016671.01.T01:CDS 45.0%
CACGTTCTTTCTGTGATCTC+TGG + Chr3:86430411-86430430 MsG0380016671.01.T01:intron 45.0%
CAGTTCAGGATGCCAGATAT+GGG + Chr3:86430597-86430616 MsG0380016671.01.T01:CDS 45.0%
CATTACCAGCTCAATGTCGT+GGG - Chr3:86430712-86430731 None:intergenic 45.0%
CTGGGACTAAAACCCATTGA+TGG + Chr3:86430137-86430156 MsG0380016671.01.T01:CDS 45.0%
GACCTACGTTATATTTGGGG+AGG + Chr3:86430527-86430546 MsG0380016671.01.T01:CDS 45.0%
GGCTCTCAAAACTCACAATG+GGG + Chr3:86430767-86430786 MsG0380016671.01.T01:CDS 45.0%
GTTCTTTCTGTGATCTCTGG+TGG + Chr3:86430414-86430433 MsG0380016671.01.T01:intron 45.0%
TCACGAATCGCGAAAGATAG+TGG - Chr3:86430344-86430363 None:intergenic 45.0%
TCATTACCAGCTCAATGTCG+TGG - Chr3:86430713-86430732 None:intergenic 45.0%
TGAACCTTCAGTACCACCTA+CGG - Chr3:86430072-86430091 None:intergenic 45.0%
TGCCTCCCCAAATATAACGT+AGG - Chr3:86430532-86430551 None:intergenic 45.0%
! AGCTGGTAATGACACAAGCT+GGG + Chr3:86430721-86430740 MsG0380016671.01.T01:CDS 45.0%
! GACGCCATTTGATAGCACTT+TGG - Chr3:86430279-86430298 None:intergenic 45.0%
!! GAAGAGGAGGTTGATGAAAC+TGG + Chr3:86430678-86430697 MsG0380016671.01.T01:CDS 45.0%
CACAAGCTGCTCAACAGTTC+AGG + Chr3:86430583-86430602 MsG0380016671.01.T01:CDS 50.0%
GTCAAAAGCCAAGGCTGTCA+AGG + Chr3:86430746-86430765 MsG0380016671.01.T01:CDS 50.0%
TCAACCTCCTCTTCCTCTTC+AGG - Chr3:86430672-86430691 None:intergenic 50.0%
TTCGCGATTCGTGATCGACA+AGG + Chr3:86430350-86430369 MsG0380016671.01.T01:intron 50.0%
TTTGAGAGCCTTGACAGCCT+TGG - Chr3:86430757-86430776 None:intergenic 50.0%
! GAGCTGGTAATGACACAAGC+TGG + Chr3:86430720-86430739 MsG0380016671.01.T01:CDS 50.0%
! GCTGGTAATGACACAAGCTG+GGG + Chr3:86430722-86430741 MsG0380016671.01.T01:CDS 50.0%
! TCTGTGATCTCTGGTGGATG+AGG + Chr3:86430420-86430439 MsG0380016671.01.T01:intron 50.0%
!! GGACATTGTTGGTGCCATCA+TGG + Chr3:86430788-86430807 MsG0380016671.01.T01:CDS 50.0%
ACAGCCTGAAGAGGAAGAGG+AGG + Chr3:86430665-86430684 MsG0380016671.01.T01:CDS 55.0%
AGCACAGCCTGAAGAGGAAG+AGG + Chr3:86430662-86430681 MsG0380016671.01.T01:CDS 55.0%
GTGTCTGCAACTGAGAGCTC+AGG - Chr3:86430566-86430585 None:intergenic 55.0%
TGATGGAGCACAGCCTGAAG+AGG + Chr3:86430656-86430675 MsG0380016671.01.T01:CDS 55.0%
! AGCTGGGGTGTCAAAAGCCA+AGG + Chr3:86430737-86430756 MsG0380016671.01.T01:CDS 55.0%
! GTGATCTCTGGTGGATGAGG+AGG + Chr3:86430423-86430442 MsG0380016671.01.T01:intron 55.0%
!! GAACAAGGTGCTGCAGCTGA+TGG + Chr3:86430639-86430658 MsG0380016671.01.T01:CDS 55.0%
!! GGAGGTTGATGAAACTGGCG+TGG + Chr3:86430683-86430702 MsG0380016671.01.T01:CDS 55.0%
!! GGTTGATGAAACTGGCGTGG+AGG + Chr3:86430686-86430705 MsG0380016671.01.T01:CDS 55.0%
GGAGGCCCACGACATTGAGC+TGG + Chr3:86430704-86430723 MsG0380016671.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr3 gene 86430071 86431018 86430071 ID=MsG0380016671.01;Name=MsG0380016671.01
Chr3 mRNA 86430071 86431018 86430071 ID=MsG0380016671.01.T01;Parent=MsG0380016671.01;Name=MsG0380016671.01.T01;_AED=0.49;_eAED=0.51;_QI=0|0|0.5|1|0|0.5|2|194|173
Chr3 exon 86430071 86430244 86430071 ID=MsG0380016671.01.T01:exon:22255;Parent=MsG0380016671.01.T01
Chr3 exon 86430477 86431018 86430477 ID=MsG0380016671.01.T01:exon:22256;Parent=MsG0380016671.01.T01
Chr3 CDS 86430071 86430244 86430071 ID=MsG0380016671.01.T01:cds;Parent=MsG0380016671.01.T01
Chr3 CDS 86430477 86430824 86430477 ID=MsG0380016671.01.T01:cds;Parent=MsG0380016671.01.T01
Chr3 three_prime_UTR 86430825 86431018 86430825 ID=MsG0380016671.01.T01:three_prime_utr;Parent=MsG0380016671.01.T01
Gene Sequence

>MsG0380016671.01.T01

GTAGGTGGTACTGAAGGTTCAAAGCAAAGCAGAAGTGAGAAGAAGAGTCGAAAAGCAATGTTGAAGCTGGGACTAAAACCCATTGATGGTGTTACTAGGGTAACAATCAAGAGAACAAAAAATGTGAGTTGTTATCACTGTTGTCAAATAGACGTAGAGGAATTTAAACTAATGGTTATGTTTTTCATCTCGAAACCTGATGTCTTCAAGAGTCCAAATTCAGAGACCTACGTTATATTTGGGGAGGCAAAAATAGAGGACCTGAGCTCTCAGTTGCAGACACAAGCTGCTCAACAGTTCAGGATGCCAGATATGGGATCTATAATGGCAAAACAAGAACAAGGTGCTGCAGCTGATGGAGCACAGCCTGAAGAGGAAGAGGAGGTTGATGAAACTGGCGTGGAGGCCCACGACATTGAGCTGGTAATGACACAAGCTGGGGTGTCAAAAGCCAAGGCTGTCAAGGCTCTCAAAACTCACAATGGGGACATTGTTGGTGCCATCATGGAACTAACTAATTAA

Protein sequence

>MsG0380016671.01.T01

VGGTEGSKQSRSEKKSRKAMLKLGLKPIDGVTRVTIKRTKNVSCYHCCQIDVEEFKLMVMFFISKPDVFKSPNSETYVIFGEAKIEDLSSQLQTQAAQQFRMPDMGSIMAKQEQGAAADGAQPEEEEEVDETGVEAHDIELVMTQAGVSKAKAVKALKTHNGDIVGAIMELTN*