AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene60565


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60565.t1 MTR_1g492930 98.765 162 2 0 1 162 1 162 6.25e-113 317
MS.gene60565.t1 MTR_7g104020 60.127 158 60 1 4 161 14 168 2.50e-51 162
MS.gene60565.t1 MTR_7g104020 58.385 161 61 2 4 161 14 171 6.34e-50 158
MS.gene60565.t1 MTR_2g085025 56.129 155 67 1 4 158 20 173 2.58e-43 141
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60565.t1 AT3G52900 61.184 152 59 0 7 158 12 163 1.47e-59 182
MS.gene60565.t1 AT2G36410 56.863 153 63 1 6 158 43 192 7.52e-54 169
MS.gene60565.t1 AT3G52920 56.329 158 66 1 2 159 10 164 1.49e-53 167
MS.gene60565.t1 AT2G36410 56.410 156 62 2 6 158 43 195 2.29e-52 165
MS.gene60565.t1 AT2G27740 54.658 161 71 2 1 161 16 174 4.18e-52 164
MS.gene60565.t1 AT3G52920 55.901 161 65 2 2 159 10 167 6.60e-52 164
MS.gene60565.t1 AT3G09980 62.179 156 57 2 5 158 22 177 3.29e-50 159
MS.gene60565.t1 AT2G36355 57.143 154 61 2 6 158 5 154 9.93e-50 157
MS.gene60565.t1 AT5G03660 59.459 148 59 1 10 156 22 169 9.63e-42 137
MS.gene60565.t1 AT2G36355 68.605 86 27 0 73 158 27 112 1.17e-34 117
MS.gene60565.t1 AT5G03660 58.462 130 53 1 10 138 22 151 8.89e-34 116
MS.gene60565.t1 AT2G36355 68.675 83 26 0 76 158 1 83 3.81e-33 113
MS.gene60565.t1 AT2G36410 54.369 103 44 1 6 108 43 142 7.34e-31 109
MS.gene60565.t1 AT2G27740 50.926 108 52 1 1 108 16 122 1.28e-29 105
MS.gene60565.t1 AT5G03660 50.676 148 50 2 10 156 22 147 1.03e-27 101
MS.gene60565.t1 AT2G36355 50.962 104 46 2 6 108 5 104 3.72e-25 94.4

Find 32 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGGCCATTTCCACATTAC+AGG 0.296068 1.2:-69013376 MS.gene60565:CDS
CACGGCGTTTGGCTCACATT+TGG 0.338925 1.2:-69013272 MS.gene60565:CDS
TGGACAGAACTACCAGAAAA+AGG 0.350574 1.2:-69012816 MS.gene60565:intron
AAGAATAAGGATGAAGAAAC+TGG 0.374263 1.2:-69012430 MS.gene60565:CDS
ATTGCAACTTCCTTCCTCAT+AGG 0.404433 1.2:+69012884 None:intergenic
CTTAGCCTGTAATGTGGAAA+TGG 0.407703 1.2:+69013371 None:intergenic
ACGGCGTTTGGCTCACATTT+GGG 0.410967 1.2:-69013271 MS.gene60565:CDS
ATGAAGAACCTTGGGAGTAT+TGG 0.415220 1.2:-69013450 MS.gene60565:CDS
GAACAAAGAGAAGAATCATT+TGG 0.441757 1.2:-69012594 MS.gene60565:CDS
TGCAGAAAATGAAGAACCTT+GGG 0.446625 1.2:-69013458 MS.gene60565:CDS
GAAAGAGTACAAAGAAGCCT+TGG 0.456836 1.2:-69012633 MS.gene60565:CDS
TGGCTGAGAGTGAAAGAATA+AGG 0.460290 1.2:-69012443 MS.gene60565:CDS
TGAAGAAGAGACACGGCGTT+TGG 0.474600 1.2:-69013283 MS.gene60565:CDS
CATTTCCACATTACAGGCTA+AGG 0.494847 1.2:-69013370 MS.gene60565:CDS
ATGCAGAAAATGAAGAACCT+TGG 0.501028 1.2:-69013459 MS.gene60565:CDS
AGATGAAGATATTTCAAAGT+TGG 0.503217 1.2:-69013394 MS.gene60565:CDS
AATCTAGGAGCTTGAAGTGA+TGG 0.520454 1.2:-69012912 MS.gene60565:intron
GAGAGAGTTGAACTTCAACT+TGG 0.532697 1.2:-69013312 MS.gene60565:CDS
AACAAAGATGTAAAGCAACT+TGG 0.534974 1.2:-69012836 MS.gene60565:CDS
CTTGGGAGTATTGGAAGCAG+TGG 0.576920 1.2:-69013441 MS.gene60565:CDS
CACTGCTTCCAATACTCCCA+AGG 0.585127 1.2:+69013442 None:intergenic
AAGTGATGGAAGATCCTATG+AGG 0.585128 1.2:-69012898 MS.gene60565:CDS
GATGGAAGATCCTATGAGGA+AGG 0.586096 1.2:-69012894 MS.gene60565:CDS
TTCTTCCTTAGCCTGTAATG+TGG 0.593323 1.2:+69013365 None:intergenic
CTAAGGAAGAAGAGATTGAG+AGG 0.599867 1.2:-69013353 MS.gene60565:CDS
GGTGCGTAAGAAAATTGACT+TGG 0.609025 1.2:-69012861 MS.gene60565:CDS
TATGAGGAAGGAAGTTGCAA+TGG 0.615989 1.2:-69012882 MS.gene60565:CDS
GGAGTATTGGAAGCAGTGGG+AGG 0.639884 1.2:-69013437 MS.gene60565:CDS
TTGGGAGTATTGGAAGCAGT+GGG 0.639948 1.2:-69013440 MS.gene60565:CDS
AATAAGGATGAAGAAACTGG+AGG 0.697364 1.2:-69012427 MS.gene60565:CDS
GACGTGCTGAAGAAGAGACA+CGG 0.698783 1.2:-69013290 MS.gene60565:CDS
TTTGGTAGCGACACTAACTG+AGG 0.713091 1.2:-69012576 MS.gene60565:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATTGAAATTAAATTCTAT+TGG - chr1.2:69012866-69012885 MS.gene60565:CDS 10.0%
!! TTAATAATAAACTTCAAATC+TGG + chr1.2:69012711-69012730 None:intergenic 15.0%
!!! ACCTTTAAAATTTACTTAAT+AGG - chr1.2:69013188-69013207 MS.gene60565:intron 15.0%
!!! TCCTATTAAGTAAATTTTAA+AGG + chr1.2:69013192-69013211 None:intergenic 15.0%
!! AAAATTTACAAGACAAATCA+AGG + chr1.2:69013122-69013141 None:intergenic 20.0%
!! ATATGTTTATTTCCTAAACA+TGG + chr1.2:69012609-69012628 None:intergenic 20.0%
!! TTATTCAACAGAAGATAATA+TGG + chr1.2:69013063-69013082 None:intergenic 20.0%
!!! AAATTTTGTTCAAGAAATGA+TGG + chr1.2:69012789-69012808 None:intergenic 20.0%
!!! TTGATTTGTCTTGTAAATTT+TGG - chr1.2:69013121-69013140 MS.gene60565:intron 20.0%
! AATAAACTTCAAATCTGGAT+TGG + chr1.2:69012706-69012725 None:intergenic 25.0%
! AATATTGTTACCATGGTAAT+TGG + chr1.2:69013336-69013355 None:intergenic 25.0%
! AGATGAAGATATTTCAAAGT+TGG - chr1.2:69012451-69012470 MS.gene60565:intron 25.0%
! GAAGTAAAATATTGTTACCA+TGG + chr1.2:69013343-69013362 None:intergenic 25.0%
! TTTATCTCTTTAATAGATGC+TGG - chr1.2:69013382-69013401 MS.gene60565:CDS 25.0%
!! CAATATTTTACTTCGTTTCA+TGG - chr1.2:69013349-69013368 MS.gene60565:CDS 25.0%
!!! ATTGGACGATATTTTAAGTA+CGG + chr1.2:69012754-69012773 None:intergenic 25.0%
AACAAAGATGTAAAGCAACT+TGG - chr1.2:69013009-69013028 MS.gene60565:intron 30.0%
AAGAATAAGGATGAAGAAAC+TGG - chr1.2:69013415-69013434 MS.gene60565:CDS 30.0%
CTGTCGTATAATGATAATCT+AGG - chr1.2:69012918-69012937 MS.gene60565:intron 30.0%
CTTTCTATTGTCAACAACAT+GGG + chr1.2:69012840-69012859 None:intergenic 30.0%
GAACAAAGAGAAGAATCATT+TGG - chr1.2:69013251-69013270 MS.gene60565:intron 30.0%
AATAAGGATGAAGAAACTGG+AGG - chr1.2:69013418-69013437 MS.gene60565:CDS 35.0%
AGAGATTGAGAGGAAAAAGA+TGG - chr1.2:69012502-69012521 MS.gene60565:intron 35.0%
ATGCAGAAAATGAAGAACCT+TGG - chr1.2:69012386-69012405 MS.gene60565:CDS 35.0%
GCTTTCTATTGTCAACAACA+TGG + chr1.2:69012841-69012860 None:intergenic 35.0%
TGCAGAAAATGAAGAACCTT+GGG - chr1.2:69012387-69012406 MS.gene60565:CDS 35.0%
! ATGGTTGTCATACCTTTTTC+TGG + chr1.2:69013044-69013063 None:intergenic 35.0%
! CTTTTCATTGAAAGCTTCCA+AGG + chr1.2:69013232-69013251 None:intergenic 35.0%
! TTTTAGTGACACAGACTCTA+TGG + chr1.2:69013456-69013475 None:intergenic 35.0%
AATCTAGGAGCTTGAAGTGA+TGG - chr1.2:69012933-69012952 MS.gene60565:intron 40.0%
ATTGCAACTTCCTTCCTCAT+AGG + chr1.2:69012964-69012983 None:intergenic 40.0%
CATGGATTTCTTGAGAGAGA+TGG + chr1.2:69012636-69012655 None:intergenic 40.0%
CATTTCCACATTACAGGCTA+AGG - chr1.2:69012475-69012494 MS.gene60565:intron 40.0%
CTAAGGAAGAAGAGATTGAG+AGG - chr1.2:69012492-69012511 MS.gene60565:intron 40.0%
CTTAGCCTGTAATGTGGAAA+TGG + chr1.2:69012477-69012496 None:intergenic 40.0%
GACTTCGATTCCAATTACCA+TGG - chr1.2:69013323-69013342 MS.gene60565:CDS 40.0%
GAGAGAGTTGAACTTCAACT+TGG - chr1.2:69012533-69012552 MS.gene60565:intron 40.0%
GATTGAGAGGAAAAAGATGG+AGG - chr1.2:69012505-69012524 MS.gene60565:intron 40.0%
GGGAAGTAAGTTCCATGTTT+AGG - chr1.2:69012594-69012613 MS.gene60565:CDS 40.0%
GGTGCGTAAGAAAATTGACT+TGG - chr1.2:69012984-69013003 MS.gene60565:intron 40.0%
TATGAGGAAGGAAGTTGCAA+TGG - chr1.2:69012963-69012982 MS.gene60565:intron 40.0%
TGATGGTCAGCAAACTAGAT+TGG + chr1.2:69012772-69012791 None:intergenic 40.0%
TGGACAGAACTACCAGAAAA+AGG - chr1.2:69013029-69013048 MS.gene60565:intron 40.0%
TGGCTGAGAGTGAAAGAATA+AGG - chr1.2:69013402-69013421 MS.gene60565:CDS 40.0%
TTCTTCCTTAGCCTGTAATG+TGG + chr1.2:69012483-69012502 None:intergenic 40.0%
! AAGTGATGGAAGATCCTATG+AGG - chr1.2:69012947-69012966 MS.gene60565:intron 40.0%
! ATGAAGAACCTTGGGAGTAT+TGG - chr1.2:69012395-69012414 MS.gene60565:CDS 40.0%
! GAAAGAGTACAAAGAAGCCT+TGG - chr1.2:69013212-69013231 MS.gene60565:intron 40.0%
GATGGAAGATCCTATGAGGA+AGG - chr1.2:69012951-69012970 MS.gene60565:intron 45.0%
GTTGGCCATTTCCACATTAC+AGG - chr1.2:69012469-69012488 MS.gene60565:intron 45.0%
TTGTTGATCGCTTGACTGCA+TGG + chr1.2:69012654-69012673 None:intergenic 45.0%
!! TTGGGAGTATTGGAAGCAGT+GGG - chr1.2:69012405-69012424 MS.gene60565:CDS 45.0%
!! TTTGGTAGCGACACTAACTG+AGG - chr1.2:69013269-69013288 MS.gene60565:CDS 45.0%
CACTGCTTCCAATACTCCCA+AGG + chr1.2:69012406-69012425 None:intergenic 50.0%
GACGTGCTGAAGAAGAGACA+CGG - chr1.2:69012555-69012574 MS.gene60565:intron 50.0%
TGAAGAAGAGACACGGCGTT+TGG - chr1.2:69012562-69012581 MS.gene60565:intron 50.0%
! ACGGCGTTTGGCTCACATTT+GGG - chr1.2:69012574-69012593 MS.gene60565:intron 50.0%
!! CTTGGGAGTATTGGAAGCAG+TGG - chr1.2:69012404-69012423 MS.gene60565:CDS 50.0%
! CACGGCGTTTGGCTCACATT+TGG - chr1.2:69012573-69012592 MS.gene60565:intron 55.0%
!! GGAGTATTGGAAGCAGTGGG+AGG - chr1.2:69012408-69012427 MS.gene60565:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 69012386 69013481 69012386 ID=MS.gene60565
chr1.2 mRNA 69012386 69013481 69012386 ID=MS.gene60565.t1;Parent=MS.gene60565
chr1.2 exon 69013269 69013481 69013269 ID=MS.gene60565.t1.exon1;Parent=MS.gene60565.t1
chr1.2 CDS 69013269 69013481 69013269 ID=cds.MS.gene60565.t1;Parent=MS.gene60565.t1
chr1.2 exon 69012817 69012927 69012817 ID=MS.gene60565.t1.exon2;Parent=MS.gene60565.t1
chr1.2 CDS 69012817 69012927 69012817 ID=cds.MS.gene60565.t1;Parent=MS.gene60565.t1
chr1.2 exon 69012577 69012657 69012577 ID=MS.gene60565.t1.exon3;Parent=MS.gene60565.t1
chr1.2 CDS 69012577 69012657 69012577 ID=cds.MS.gene60565.t1;Parent=MS.gene60565.t1
chr1.2 exon 69012386 69012469 69012386 ID=MS.gene60565.t1.exon4;Parent=MS.gene60565.t1
chr1.2 CDS 69012386 69012469 69012386 ID=cds.MS.gene60565.t1;Parent=MS.gene60565.t1
Gene Sequence

>MS.gene60565

ATGCAGAAAATGAAGAACCTTGGGAGTATTGGAAGCAGTGGGAGGTTTTCAACAGAAGAGTGTGAAGATGAAGATATTTCAAAGTTGGCCATTTCCACATTACAGGCTAAGGAAGAAGAGATTGAGAGGAAAAAGATGGAGGTGAAAGAGAGAGTTGAACTTCAACTTGGACGTGCTGAAGAAGAGACACGGCGTTTGGCTCACATTTGGGAAGTAAGTTCCATGTTTAGGAAATAAACATATGTGACCATCTCTCTCAAGAAATCCATGCAGTCAAGCGATCAACAAATTTGATTGCTCGATAAAGATCAGACAATCCAATCCAGATTTGAAGTTTATTATTAACTTCGTTTAAGTCTGATTTACCGTACTTAAAATATCGTCCAATCTAGTTTGCTGACCATCATTTCTTGAACAAAATTTCTTAAACGAAGAGATATTACTTCTCATTCCCATGTTGTTGACAATAGAAAGCTTCAGTTATTGAAATTAAATTCTATTGGCTATGCGAACTACTAATGTCATATTCATTCTGTCGTATAATGATAATCTAGGAGCTTGAAGTGATGGAAGATCCTATGAGGAAGGAAGTTGCAATGGTGCGTAAGAAAATTGACTTGGCTAACAAAGATGTAAAGCAACTTGGACAGAACTACCAGAAAAAGGTATGACAACCATATTATCTTCTGTTGAATAATATTAATACGATCAGCATCAAGCTTCTAGTATTCTGCCTTGATTTGTCTTGTAAATTTTGGAATTACTTCGTTCATATATGAATAAACATTAAGAGTGAAAACTAACCTTTAAAATTTACTTAATAGGAGAAAGAGTACAAAGAAGCCTTGGAAGCTTTCAATGAAAAGAACAAAGAGAAGAATCATTTGGTAGCGACACTAACTGAGGTATAGTACTCAACACTTGTGTTATGACTTATGACTTCGATTCCAATTACCATGGTAACAATATTTTACTTCGTTTCATGGTTGCAATTTTTTTATCTCTTTAATAGATGCTGGCTGAGAGTGAAAGAATAAGGATGAAGAAACTGGAGGAGCTATGCAAGACCATAGAGTCTGTGTCACTAAAACAATAA

Protein sequence

>MS.gene60565.t1

MQKMKNLGSIGSSGRFSTEECEDEDISKLAISTLQAKEEEIERKKMEVKERVELQLGRAEEETRRLAHIWEELEVMEDPMRKEVAMVRKKIDLANKDVKQLGQNYQKKEKEYKEALEAFNEKNKEKNHLVATLTEMLAESERIRMKKLEELCKTIESVSLKQ