AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680034508.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680034508.01.T01 MTR_7g087960 57.018 228 16 4 13 158 252 479 5.02e-73 231
MsG0680034508.01.T01 MTR_7g087890 56.034 232 16 4 13 158 269 500 8.45e-73 233
MsG0680034508.01.T01 MTR_0176s0070 55.794 233 17 4 12 158 259 491 2.41e-72 229
MsG0680034508.01.T01 MTR_7g088410 44.737 228 44 3 13 158 261 488 1.23e-53 180
MsG0680034508.01.T01 MTR_7g088470 43.913 230 45 5 13 158 258 487 9.09e-49 167
MsG0680034508.01.T01 MTR_7g088440 42.424 231 48 5 13 158 256 486 1.46e-47 163
MsG0680034508.01.T01 MTR_6g025790 56.800 125 21 1 13 104 271 395 8.67e-45 155
MsG0680034508.01.T01 MTR_7g088420 38.961 231 56 4 13 158 256 486 4.17e-44 154
MsG0680034508.01.T01 MTR_2g090585 41.704 223 47 5 19 158 253 475 6.22e-44 153
MsG0680034508.01.T01 MTR_6g025730 54.839 124 23 1 13 103 271 394 1.30e-41 147
MsG0680034508.01.T01 MTR_7g087880 55.782 147 16 3 61 158 33 179 7.53e-41 140
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680034508.01.T01 AT3G10740 42.982 228 48 4 13 158 267 494 3.52e-48 165
MsG0680034508.01.T01 AT3G10740 42.982 228 48 4 13 158 267 494 3.52e-48 165
MsG0680034508.01.T01 AT3G10740 42.982 228 48 4 13 158 286 513 4.38e-48 165
MsG0680034508.01.T01 AT3G10740 42.982 228 48 4 13 158 286 513 4.38e-48 165
MsG0680034508.01.T01 AT5G26120 42.105 228 50 4 13 158 266 493 2.64e-46 160

Find 37 sgRNAs with CRISPR-Local

Find 86 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAATGACATATGGAATTAT+TGG 0.165711 6:-88968773 MsG0680034508.01.T01:CDS
CTGAAGCTGCATTCCTCATT+GGG 0.279909 6:-88967858 MsG0680034508.01.T01:CDS
GCTGAAGCTGCATTCCTCAT+TGG 0.305021 6:-88967859 MsG0680034508.01.T01:CDS
GGGTTCTCTAAGAGCTTTCA+TGG 0.350201 6:-88968578 MsG0680034508.01.T01:CDS
TTCCACCTAAAAGCATTTCT+CGG 0.376346 6:+88968834 None:intergenic
AAAAGAAATAAAATAAATAA+TGG 0.377913 6:-88969460 MsG0680034508.01.T01:intron
ATAGGTGGTTGTTATGTAGA+AGG 0.380248 6:-88968864 MsG0680034508.01.T01:intron
TATTGGACTGATGATGGATT+TGG 0.387454 6:-88968756 MsG0680034508.01.T01:CDS
GGGCTTGAAAAGAATAGGTT+TGG 0.396956 6:-88967838 MsG0680034508.01.T01:CDS
TGTGATAAATATAACTATCT+AGG 0.415390 6:-88968505 MsG0680034508.01.T01:intron
TAGCAAACTCAATACCATCT+AGG 0.416261 6:+88968623 None:intergenic
TGGAATTATTGGACTGATGA+TGG 0.446767 6:-88968762 MsG0680034508.01.T01:CDS
CTGGCCACTTTAATGACATA+TGG 0.449402 6:-88968782 MsG0680034508.01.T01:CDS
AATTAATAGGAAGCCCTAGA+TGG 0.466015 6:-88968637 MsG0680034508.01.T01:intron
TCATTGGGCTTGAAAAGAAT+AGG 0.469488 6:-88967843 MsG0680034508.01.T01:CDS
GCAACAAATCTCAAATCAAA+TGG 0.471002 6:+88968544 None:intergenic
GATTTGAGATTTGTTGCCAT+TGG 0.486041 6:-88968538 MsG0680034508.01.T01:CDS
ATCACAATCTTCATTTCCAA+TGG 0.500454 6:+88968522 None:intergenic
AGGTTCTTCCACATCACGAT+GGG 0.504375 6:-88968599 MsG0680034508.01.T01:CDS
CTTCAGCAACAGCTGCGTAA+AGG 0.512671 6:+88967875 None:intergenic
AATCTCAAATCAAATGGCTC+AGG 0.516202 6:+88968550 None:intergenic
AGCAAACTCAATACCATCTA+GGG 0.520562 6:+88968624 None:intergenic
AATTCCATATGTCATTAAAG+TGG 0.524694 6:+88968778 None:intergenic
GAAAGATACAGTTGGACCAT+GGG 0.528095 6:-88968814 MsG0680034508.01.T01:CDS
TTGTTAGTGAGTATGCTGTT+TGG 0.535711 6:-88967921 MsG0680034508.01.T01:CDS
CATATGTCATTAAAGTGGCC+AGG 0.546800 6:+88968783 None:intergenic
TGGCCAGGTCTCTCTTCCCA+TGG 0.551820 6:+88968798 None:intergenic
GATGGTATTGAGTTTGCTAG+AGG 0.576600 6:-88968619 MsG0680034508.01.T01:CDS
GGAAAGATACAGTTGGACCA+TGG 0.578747 6:-88968815 MsG0680034508.01.T01:CDS
TTTAGGTGGAAAGATACAGT+TGG 0.580714 6:-88968822 MsG0680034508.01.T01:CDS
GGACCATGGGAAGAGAGACC+TGG 0.595111 6:-88968801 MsG0680034508.01.T01:CDS
TAGAGAACCCCATCGTGATG+TGG 0.623492 6:+88968591 None:intergenic
GCTGTTTGGAAGGAAGATGC+TGG 0.626341 6:-88967907 MsG0680034508.01.T01:CDS
TAGTGAGTATGCTGTTTGGA+AGG 0.628304 6:-88967917 MsG0680034508.01.T01:CDS
GGTTCTCTAAGAGCTTTCAT+GGG 0.632668 6:-88968577 MsG0680034508.01.T01:CDS
GAGGTTCTTCCACATCACGA+TGG 0.646847 6:-88968600 MsG0680034508.01.T01:CDS
GGTTCTTCCACATCACGATG+GGG 0.688195 6:-88968598 MsG0680034508.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTGACAAAAAAAAAAAAAAA+CGG - Chr6:88968057-88968076 MsG0680034508.01.T01:intron 10.0%
!!! AAATTAGTAACTTTTAAAAT+TGG + Chr6:88969108-88969127 None:intergenic 10.0%
!!! GAATAAAAAATATTTTAGAA+AGG + Chr6:88968604-88968623 None:intergenic 10.0%
!!! GATTTTTTTTATAATATAGA+TGG + Chr6:88968389-88968408 None:intergenic 10.0%
!!! TAATCTTAATCTTTAAAATA+TGG - Chr6:88967882-88967901 MsG0680034508.01.T01:CDS 10.0%
!!! TATTTTAAAGATTAAGATTA+TGG + Chr6:88967882-88967901 None:intergenic 10.0%
!!! TTTTTTTTTTTGTCAAAAAA+AGG + Chr6:88968053-88968072 None:intergenic 10.0%
!! AACAAAAAAATAATTGTGTT+AGG + Chr6:88968419-88968438 None:intergenic 15.0%
!!! AAACATGTGAATTTTTTTTA+AGG + Chr6:88968224-88968243 None:intergenic 15.0%
!!! AATAAAAAGTATTATTGACA+AGG + Chr6:88969166-88969185 None:intergenic 15.0%
!!! AATTATTTTTTTGTTATAGG+TGG - Chr6:88968424-88968443 MsG0680034508.01.T01:intron 15.0%
!!! AATTCATGCATTTTTATTAT+AGG - Chr6:88968347-88968366 MsG0680034508.01.T01:intron 15.0%
!!! CACAATTATTTTTTTGTTAT+AGG - Chr6:88968421-88968440 MsG0680034508.01.T01:intron 15.0%
!! ACTTTCGATCATTAATTAAT+AGG - Chr6:88968653-88968672 MsG0680034508.01.T01:intron 20.0%
!! CAAAAAACTATATTCTTACT+AGG - Chr6:88967991-88968010 MsG0680034508.01.T01:intron 20.0%
!! TCATATGTTAAATTATGAGT+CGG - Chr6:88968262-88968281 MsG0680034508.01.T01:intron 20.0%
!! TGTGATAAATATAACTATCT+AGG - Chr6:88968798-88968817 MsG0680034508.01.T01:CDS 20.0%
!! TTAATGACATATGGAATTAT+TGG - Chr6:88968530-88968549 MsG0680034508.01.T01:CDS 20.0%
!!! TCTGTATTTTTTTATTGACT+AGG - Chr6:88968931-88968950 MsG0680034508.01.T01:intron 20.0%
!!! TTTGAGATAATTTGAATATC+AGG + Chr6:88968995-88969014 None:intergenic 20.0%
! AAGGATATATAACATGTAAG+TGG + Chr6:88969147-88969166 None:intergenic 25.0%
! AATTCCATATGTCATTAAAG+TGG + Chr6:88968528-88968547 None:intergenic 25.0%
! CAAATTATCTCAAATTGTGA+TGG - Chr6:88969001-88969020 MsG0680034508.01.T01:intron 25.0%
! GTTATCGAATTTGGTATAAT+TGG + Chr6:88969228-88969247 None:intergenic 25.0%
! TTAATATTGCCTAAGAAACA+AGG + Chr6:88968087-88968106 None:intergenic 25.0%
! TTAGATTCATACAGATTCTA+TGG - Chr6:88969193-88969212 MsG0680034508.01.T01:intron 25.0%
!! ATGCATTTTTATTATAGGTG+GGG - Chr6:88968352-88968371 MsG0680034508.01.T01:intron 25.0%
!! CATGCATTTTTATTATAGGT+GGG - Chr6:88968351-88968370 MsG0680034508.01.T01:intron 25.0%
!! TCATGCATTTTTATTATAGG+TGG - Chr6:88968350-88968369 MsG0680034508.01.T01:intron 25.0%
!! TTTTAATCAAACCTTTGAAC+CGG + Chr6:88969261-88969280 None:intergenic 25.0%
!!! TCTTTAAAATATGGTCTCTT+TGG - Chr6:88967891-88967910 MsG0680034508.01.T01:CDS 25.0%
ATCACAATCTTCATTTCCAA+TGG + Chr6:88968784-88968803 None:intergenic 30.0%
GCAACAAATCTCAAATCAAA+TGG + Chr6:88968762-88968781 None:intergenic 30.0%
TAAAATATGGTCTCTTTGGT+AGG - Chr6:88967895-88967914 MsG0680034508.01.T01:CDS 30.0%
TGAAAATCATATAGATCTGC+CGG + Chr6:88969049-88969068 None:intergenic 30.0%
TTATAGCTTCATAGAACTTC+AGG + Chr6:88968963-88968982 None:intergenic 30.0%
! ATTATCCGAGAAATGCTTTT+AGG - Chr6:88968464-88968483 MsG0680034508.01.T01:intron 30.0%
! TCATTTCTCTCTTTTTGCTT+CGG - Chr6:88967959-88967978 MsG0680034508.01.T01:CDS 30.0%
!!! ATGGATTTGGTTATTTTGAG+GGG - Chr6:88968560-88968579 MsG0680034508.01.T01:CDS 30.0%
!!! GATGGATTTGGTTATTTTGA+GGG - Chr6:88968559-88968578 MsG0680034508.01.T01:CDS 30.0%
!!! TGATGGATTTGGTTATTTTG+AGG - Chr6:88968558-88968577 MsG0680034508.01.T01:CDS 30.0%
AATCTCAAATCAAATGGCTC+AGG + Chr6:88968756-88968775 None:intergenic 35.0%
AATTAATAGGAAGCCCTAGA+TGG - Chr6:88968666-88968685 MsG0680034508.01.T01:intron 35.0%
AGCAAACTCAATACCATCTA+GGG + Chr6:88968682-88968701 None:intergenic 35.0%
ATAGGTGGTTGTTATGTAGA+AGG - Chr6:88968439-88968458 MsG0680034508.01.T01:intron 35.0%
CAAACATCAATTAGATCACC+CGG - Chr6:88969027-88969046 MsG0680034508.01.T01:intron 35.0%
GAAAATCATATAGATCTGCC+GGG + Chr6:88969048-88969067 None:intergenic 35.0%
TAGCAAACTCAATACCATCT+AGG + Chr6:88968683-88968702 None:intergenic 35.0%
TCATTGGGCTTGAAAAGAAT+AGG - Chr6:88969460-88969479 MsG0680034508.01.T01:intron 35.0%
TGGAATTATTGGACTGATGA+TGG - Chr6:88968541-88968560 MsG0680034508.01.T01:CDS 35.0%
TTGTTAGTGAGTATGCTGTT+TGG - Chr6:88969382-88969401 MsG0680034508.01.T01:intron 35.0%
TTTAGGTGGAAAGATACAGT+TGG - Chr6:88968481-88968500 MsG0680034508.01.T01:intron 35.0%
! TCTTTTTGCTTCGGTTTCTT+AGG - Chr6:88967968-88967987 MsG0680034508.01.T01:CDS 35.0%
!! GATTTGAGATTTGTTGCCAT+TGG - Chr6:88968765-88968784 MsG0680034508.01.T01:CDS 35.0%
!! TATTCTTTTCAAGCCCAATG+AGG + Chr6:88969461-88969480 None:intergenic 35.0%
!! TATTGGACTGATGATGGATT+TGG - Chr6:88968547-88968566 MsG0680034508.01.T01:CDS 35.0%
!! TTCCACCTAAAAGCATTTCT+CGG + Chr6:88968472-88968491 None:intergenic 35.0%
CATATGTCATTAAAGTGGCC+AGG + Chr6:88968523-88968542 None:intergenic 40.0%
CGGGTGATCTAATTGATGTT+TGG + Chr6:88969029-88969048 None:intergenic 40.0%
GAAAGATACAGTTGGACCAT+GGG - Chr6:88968489-88968508 MsG0680034508.01.T01:intron 40.0%
GGGCTTGAAAAGAATAGGTT+TGG - Chr6:88969465-88969484 MsG0680034508.01.T01:CDS 40.0%
! ATCCGAGAAATGCTTTTAGG+TGG - Chr6:88968467-88968486 MsG0680034508.01.T01:intron 40.0%
! CTGGCCACTTTAATGACATA+TGG - Chr6:88968521-88968540 MsG0680034508.01.T01:CDS 40.0%
! GGTTCTCTAAGAGCTTTCAT+GGG - Chr6:88968726-88968745 MsG0680034508.01.T01:intron 40.0%
! TAGTGAGTATGCTGTTTGGA+AGG - Chr6:88969386-88969405 MsG0680034508.01.T01:intron 40.0%
! TCTTGGTGCGTTATCGAATT+TGG + Chr6:88969237-88969256 None:intergenic 40.0%
!! GATGGTATTGAGTTTGCTAG+AGG - Chr6:88968684-88968703 MsG0680034508.01.T01:intron 40.0%
AGGTTCTTCCACATCACGAT+GGG - Chr6:88968704-88968723 MsG0680034508.01.T01:intron 45.0%
CAAACCTTTGAACCGGATCT+TGG + Chr6:88969254-88969273 None:intergenic 45.0%
CTGAAGCTGCATTCCTCATT+GGG - Chr6:88969445-88969464 MsG0680034508.01.T01:intron 45.0%
GGAAAGATACAGTTGGACCA+TGG - Chr6:88968488-88968507 MsG0680034508.01.T01:intron 45.0%
TTCGATAACGCACCAAGATC+CGG - Chr6:88969239-88969258 MsG0680034508.01.T01:intron 45.0%
! GGGTTCTCTAAGAGCTTTCA+TGG - Chr6:88968725-88968744 MsG0680034508.01.T01:intron 45.0%
!! AACGGCATGCCTTGTTTCTT+AGG - Chr6:88968075-88968094 MsG0680034508.01.T01:intron 45.0%
!! AAAAGAAATAAAATAAATAA+TGG - Chr6:88967843-88967862 MsG0680034508.01.T01:CDS 5.0%
!!! ATTAATTTTTTTTTATAAGT+GGG - Chr6:88968878-88968897 MsG0680034508.01.T01:intron 5.0%
!!! TATTAATTTTTTTTTATAAG+TGG - Chr6:88968877-88968896 MsG0680034508.01.T01:intron 5.0%
CTTCAGCAACAGCTGCGTAA+AGG + Chr6:88969431-88969450 None:intergenic 50.0%
GAGGTTCTTCCACATCACGA+TGG - Chr6:88968703-88968722 MsG0680034508.01.T01:intron 50.0%
GCTGAAGCTGCATTCCTCAT+TGG - Chr6:88969444-88969463 MsG0680034508.01.T01:intron 50.0%
GCTGTTTGGAAGGAAGATGC+TGG - Chr6:88969396-88969415 MsG0680034508.01.T01:intron 50.0%
GGTTCTTCCACATCACGATG+GGG - Chr6:88968705-88968724 MsG0680034508.01.T01:intron 50.0%
TAGAGAACCCCATCGTGATG+TGG + Chr6:88968715-88968734 None:intergenic 50.0%
CGCACCAAGATCCGGTTCAA+AGG - Chr6:88969247-88969266 MsG0680034508.01.T01:intron 55.0%
GGACCATGGGAAGAGAGACC+TGG - Chr6:88968502-88968521 MsG0680034508.01.T01:intron 60.0%
TGGCCAGGTCTCTCTTCCCA+TGG + Chr6:88968508-88968527 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr6 gene 88967828 88969497 88967828 ID=MsG0680034508.01;Name=MsG0680034508.01
Chr6 mRNA 88967828 88969497 88967828 ID=MsG0680034508.01.T01;Parent=MsG0680034508.01;Name=MsG0680034508.01.T01;_AED=0.47;_eAED=0.47;_QI=0|0|0|0.5|1|1|4|0|163
Chr6 exon 88969461 88969497 88969461 ID=MsG0680034508.01.T01:exon:1221;Parent=MsG0680034508.01.T01
Chr6 exon 88968737 88968882 88968737 ID=MsG0680034508.01.T01:exon:1220;Parent=MsG0680034508.01.T01
Chr6 exon 88968506 88968650 88968506 ID=MsG0680034508.01.T01:exon:1219;Parent=MsG0680034508.01.T01
Chr6 exon 88967828 88967991 88967828 ID=MsG0680034508.01.T01:exon:1218;Parent=MsG0680034508.01.T01
Chr6 CDS 88969461 88969497 88969461 ID=MsG0680034508.01.T01:cds;Parent=MsG0680034508.01.T01
Chr6 CDS 88968737 88968882 88968737 ID=MsG0680034508.01.T01:cds;Parent=MsG0680034508.01.T01
Chr6 CDS 88968506 88968650 88968506 ID=MsG0680034508.01.T01:cds;Parent=MsG0680034508.01.T01
Chr6 CDS 88967828 88967991 88967828 ID=MsG0680034508.01.T01:cds;Parent=MsG0680034508.01.T01
Gene Sequence

>MsG0680034508.01.T01

ATGTTAACTTTCATGAAAAGAAATAAAATAAATAATGGTGGTTGTTATGTAGAAGGAGATTATCCGAGAAATGCTTTTAGGTGGAAAGATACAGTTGGACCATGGGAAGAGAGACCTGGCCACTTTAATGACATATGGAATTATTGGACTGATGATGGATTTGGTTATTTTGAGGGGCTTCAAGAAGCCCTAGATGGTATTGAGTTTGCTAGAGGTTCTTCCACATCACGATGGGGTTCTCTAAGAGCTTTCATGGGACATCCTGAGCCATTTGATTTGAGATTTGTTGCCATTGGAAATGAAGATTGTGATAAATATAACTATCTAGATGAATTTGCTCAAGTTTTATTAATTTCTACAATAAATATACATGCATTTGTTAGTGAGTATGCTGTTTGGAAGGAAGATGCTGGTGCTGCAAGCCTTTACGCAGCTGTTGCTGAAGCTGCATTCCTCATTGGGCTTGAAAAGAATAGGTTTGGTTATGTATAA
Protein sequence

>MsG0680034508.01.T01

MLTFMKRNKINNGGCYVEGDYPRNAFRWKDTVGPWEERPGHFNDIWNYWTDDGFGYFEGLQEALDGIEFARGSSTSRWGSLRAFMGHPEPFDLRFVAIGNEDCDKYNYLDEFAQVLLISTINIHAFVSEYAVWKEDAGAASLYAAVAEAAFLIGLEKNRFGYV*