AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene83546

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83546.t1 MTR_7g023810 65.409 159 40 4 5 148 1 159 2.11e-61 187
MS.gene83546.t1 MTR_1g115315 55.901 161 46 3 16 151 22 182 7.89e-51 163
MS.gene83546.t1 MTR_1g115315 55.901 161 46 3 16 151 22 182 1.19e-50 162
MS.gene83546.t1 MTR_3g115620 46.853 143 50 2 18 134 19 161 1.91e-39 132
MS.gene83546.t1 MTR_4g084550 39.286 84 44 1 58 141 64 140 1.36e-14 67.8
MS.gene83546.t1 MTR_8g107210 38.710 93 53 2 58 150 96 184 3.59e-14 68.9
MS.gene83546.t1 MTR_2g015000 41.935 62 36 0 58 119 55 116 3.37e-12 63.2
MS.gene83546.t1 MTR_7g025010 36.145 83 52 1 37 119 27 108 1.44e-11 61.6
MS.gene83546.t1 MTR_7g060630 37.879 66 41 0 58 123 8 73 2.35e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83546.t1 AT4G35550 50.667 150 47 3 16 138 35 184 1.22e-38 132
MS.gene83546.t1 AT1G20700 45.600 125 43 1 18 117 30 154 1.74e-34 120
MS.gene83546.t1 AT1G20700 45.600 125 43 1 18 117 30 154 1.80e-34 119
MS.gene83546.t1 AT1G20700 45.349 86 47 0 32 117 7 92 8.40e-26 96.3
MS.gene83546.t1 AT1G20710 42.537 134 52 1 18 126 14 147 1.07e-25 97.1
MS.gene83546.t1 AT5G45980 42.424 66 38 0 54 119 51 116 1.76e-13 66.6
MS.gene83546.t1 AT3G18010 31.731 104 67 1 28 127 42 145 5.69e-13 65.5
MS.gene83546.t1 AT2G33880 41.935 62 36 0 58 119 55 116 4.97e-12 62.8
MS.gene83546.t1 AT2G33880 41.935 62 36 0 58 119 55 116 5.15e-12 62.8
MS.gene83546.t1 AT2G28610 38.462 65 40 0 58 122 8 72 8.47e-12 61.2
MS.gene83546.t1 AT2G01500 43.636 55 31 0 58 112 61 115 1.29e-11 61.2

Find 23 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAACTTACTAGTGCGATTT+TGG 0.200209 2.2:+637322 None:intergenic
CTGAGACCAATGTATATAAT+TGG 0.221984 2.2:-636935 MS.gene83546:CDS
ACCTGTACAACTTCAAACTA+TGG 0.358508 2.2:-637045 MS.gene83546:CDS
TATAAACTACATTCTTTAGT+TGG 0.359440 2.2:+636770 None:intergenic
TCCAAGCAAGGAAAAGATAA+AGG 0.385115 2.2:-636994 MS.gene83546:CDS
CTCAGAAATTTGTCCGTGCT+TGG 0.426170 2.2:+636953 None:intergenic
TTGGACTAGATATGAATTCA+AGG 0.448892 2.2:-637085 MS.gene83546:intron
TCCATAGTTTGAAGTTGTAC+AGG 0.451456 2.2:+637044 None:intergenic
GAAAGGCATGGAGATCTTGA+TGG 0.460857 2.2:-637469 None:intergenic
TATGAATTCAAGGCATCGTT+GGG 0.483810 2.2:-637075 MS.gene83546:CDS
CAAGAGAAAGCATCGGAGTA+GGG 0.507277 2.2:-636889 MS.gene83546:CDS
ACAAGAGAAAGCATCGGAGT+AGG 0.511487 2.2:-636890 MS.gene83546:CDS
GCAAATATTTGAAGATGAGA+CGG 0.560708 2.2:-637021 MS.gene83546:CDS
CTGAAACCAATTATATACAT+TGG 0.563327 2.2:+636929 None:intergenic
GGTTTCAGAACAGACGTGCT+AGG 0.577434 2.2:-636914 MS.gene83546:CDS
GTTGTTGATTTAGCCAAGCA+CGG 0.577536 2.2:-636966 MS.gene83546:CDS
ATATGAATTCAAGGCATCGT+TGG 0.578747 2.2:-637076 MS.gene83546:CDS
GTTTGAAGTTGTACAGGTGT+TGG 0.595078 2.2:+637050 None:intergenic
GGTTAATGTTGAATCAGAAG+TGG 0.597468 2.2:-636868 MS.gene83546:CDS
TGAGACGGAGTCTCCAAGCA+AGG 0.651947 2.2:-637006 MS.gene83546:CDS
CTTATCATCAGAATCAACCT+CGG 0.655992 2.2:+636842 None:intergenic
CTAGGTACAAGAGAAAGCAT+CGG 0.670064 2.2:-636896 MS.gene83546:CDS
TGAATCAGAAGTGGAGACCG+AGG 0.711591 2.2:-636859 MS.gene83546:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAAAAAAAAAAAAAAGTTAA+GGG - chr2.2:637024-637043 MS.gene83546:CDS 10.0%
!! TCAAAAAAAAAAAAAAGTTA+AGG - chr2.2:637023-637042 MS.gene83546:CDS 10.0%
!! AACTGAATAAAATAACAATC+TGG + chr2.2:637107-637126 None:intergenic 20.0%
! CATGATGATCACATTTAATT+AGG - chr2.2:637074-637093 MS.gene83546:CDS 25.0%
! CTGAAACCAATTATATACAT+TGG + chr2.2:637321-637340 None:intergenic 25.0%
! TAAGTTCACTAGTAAGTTTA+GGG - chr2.2:636940-636959 MS.gene83546:CDS 25.0%
!! AAGAAAGTGTAACTGAATTT+AGG + chr2.2:637138-637157 None:intergenic 25.0%
!! CAGTTACACTTTCTTTTTAT+TGG - chr2.2:637143-637162 MS.gene83546:intron 25.0%
!!! CATAAACTGCAATTTGTTTT+CGG + chr2.2:636868-636887 None:intergenic 25.0%
!!! TTTGGTTTTTATGCATTTGA+AGG + chr2.2:636910-636929 None:intergenic 25.0%
CTGAGACCAATGTATATAAT+TGG - chr2.2:637312-637331 MS.gene83546:intron 30.0%
GCAAATATTTGAAGATGAGA+CGG - chr2.2:637226-637245 MS.gene83546:intron 30.0%
GTAAGTTCACTAGTAAGTTT+AGG - chr2.2:636939-636958 MS.gene83546:CDS 30.0%
! TTGGACTAGATATGAATTCA+AGG - chr2.2:637162-637181 MS.gene83546:intron 30.0%
ACCTGTACAACTTCAAACTA+TGG - chr2.2:637202-637221 MS.gene83546:intron 35.0%
CTTATCATCAGAATCAACCT+CGG + chr2.2:637408-637427 None:intergenic 35.0%
GGTTAATGTTGAATCAGAAG+TGG - chr2.2:637379-637398 MS.gene83546:CDS 35.0%
TCCAAGCAAGGAAAAGATAA+AGG - chr2.2:637253-637272 MS.gene83546:intron 35.0%
! ATTCTCTCTGGTGTCAATTT+AGG - chr2.2:636982-637001 MS.gene83546:CDS 35.0%
! TCCATAGTTTGAAGTTGTAC+AGG + chr2.2:637206-637225 None:intergenic 35.0%
! TCCTTTATCTTTTCCTTGCT+TGG + chr2.2:637257-637276 None:intergenic 35.0%
! TGAACTTACTAGTGCGATTT+TGG + chr2.2:636928-636947 None:intergenic 35.0%
!! ATATGAATTCAAGGCATCGT+TGG - chr2.2:637171-637190 MS.gene83546:intron 35.0%
!! TATGAATTCAAGGCATCGTT+GGG - chr2.2:637172-637191 MS.gene83546:intron 35.0%
! CTAGGTACAAGAGAAAGCAT+CGG - chr2.2:637351-637370 MS.gene83546:CDS 40.0%
! GTTTGAAGTTGTACAGGTGT+TGG + chr2.2:637200-637219 None:intergenic 40.0%
! TCTCTGGTGTCAATTTAGGT+GGG - chr2.2:636986-637005 MS.gene83546:CDS 40.0%
!! GTTGTTGATTTAGCCAAGCA+CGG - chr2.2:637281-637300 MS.gene83546:intron 40.0%
CTCAGAAATTTGTCCGTGCT+TGG + chr2.2:637297-637316 None:intergenic 45.0%
! CTCTCTGGTGTCAATTTAGG+TGG - chr2.2:636985-637004 MS.gene83546:CDS 45.0%
! GTTTAGGGTTATAGCGTCTC+AGG - chr2.2:636955-636974 MS.gene83546:CDS 45.0%
!! ACAAGAGAAAGCATCGGAGT+AGG - chr2.2:637357-637376 MS.gene83546:CDS 45.0%
!! CAAGAGAAAGCATCGGAGTA+GGG - chr2.2:637358-637377 MS.gene83546:CDS 45.0%
!! TGAGTTTTGTGCGTCTCAAC+TGG - chr2.2:637436-637455 MS.gene83546:CDS 45.0%
GGTTTCAGAACAGACGTGCT+AGG - chr2.2:637333-637352 MS.gene83546:CDS 50.0%
GTCTCAGGTTCGATTCTCTC+TGG - chr2.2:636970-636989 MS.gene83546:CDS 50.0%
TGAATCAGAAGTGGAGACCG+AGG - chr2.2:637388-637407 MS.gene83546:CDS 50.0%
!!! GCGTCTCAACTGGCTTTTGA+TGG - chr2.2:637446-637465 MS.gene83546:CDS 50.0%
TGAGACGGAGTCTCCAAGCA+AGG - chr2.2:637241-637260 MS.gene83546:intron 55.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 636785 637484 636785 ID=MS.gene83546
chr2.2 mRNA 636785 637484 636785 ID=MS.gene83546.t1;Parent=MS.gene83546
chr2.2 exon 637331 637484 637331 ID=MS.gene83546.t1.exon1;Parent=MS.gene83546.t1
chr2.2 CDS 637331 637484 637331 ID=cds.MS.gene83546.t1;Parent=MS.gene83546.t1
chr2.2 exon 636785 637098 636785 ID=MS.gene83546.t1.exon2;Parent=MS.gene83546.t1
chr2.2 CDS 636785 637098 636785 ID=cds.MS.gene83546.t1;Parent=MS.gene83546.t1
Gene Sequence

>MS.gene83546

ATGGAGATCTTGATGGAGTTGCAGATGAATGATTTGAATCAGAACGTAAATGTGATGACTGATGAACAAGTCGAAACTCTCCGAAAACAAATTGCAGTTTATGCTGTCATCTCTGAACAACTCCTTCAAATGCATAAAAACCAAAATCGCACTAGTAAGTTCACTAGTAAGTTTAGGGTTATAGCGTCTCAGGTTCGATTCTCTCTGGTGTCAATTTAGGTGGGTTAATTTAGCTTCTTCAAAAAAAAAAAAAAGTTAAGGGTTATAGTATCACATCACTCTCTCACTACATGATGATCACATTTAATTAGGTCATACTCCAGATTGTTATTTTATTCAGTTATAGAATACCTAAATTCAGTTACACTTTCTTTTTATTGGACTAGATATGAATTCAAGGCATCGTTGGGCACCAACACCTGTACAACTTCAAACTATGGAGCAAATATTTGAAGATGAGACGGAGTCTCCAAGCAAGGAAAAGATAAAGGAGATTGTTGTTGATTTAGCCAAGCACGGACAAATTTCTGAGACCAATGTATATAATTGGTTTCAGAACAGACGTGCTAGGTACAAGAGAAAGCATCGGAGTAGGGTTAATGTTGAATCAGAAGTGGAGACCGAGGTTGATTCTGATGATAAGAAGATCGATGAGTTTTGTGCGTCTCAACTGGCTTTTGATGGTATGCTATCCAACTAA
Protein sequence

>MS.gene83546.t1

MEILMELQMNDLNQNVNVMTDEQVETLRKQIAVYAVISEQLLQMHKNQNRTNMNSRHRWAPTPVQLQTMEQIFEDETESPSKEKIKEIVVDLAKHGQISETNVYNWFQNRRARYKRKHRSRVNVESEVETEVDSDDKKIDEFCASQLAFDGMLSN